Created
February 28, 2020 23:44
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| [ghartzell@bifx1n03 spack-update-kallisto]$ spack -d install kallisto | |
| ==> [2020-02-28-15:43:15.438065, 15427] Imported install from built-in commands | |
| ==> [2020-02-28-15:43:15.439304, 15427] Reading config file /home/ghartzell/tmp/spack-update-kallisto/etc/spack/defaults/config.yaml | |
| ==> [2020-02-28-15:43:15.453801, 15427] Imported install from built-in commands | |
| ==> [2020-02-28-15:43:15.455972, 15427] Reading config file /home/ghartzell/tmp/spack-update-kallisto/etc/spack/defaults/repos.yaml | |
| ==> [2020-02-28-15:43:15.525066, 15427] Reading config file /home/ghartzell/tmp/spack-update-kallisto/etc/spack/defaults/packages.yaml | |
| ==> [2020-02-28-15:43:15.541270, 15427] READ LOCK: /home/ghartzell/.spack/cache/tags/.builtin-index.json.lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:15.541371, 15427] read locking [0:0]: timeout 120 sec | |
| ==> [2020-02-28-15:43:15.541434, 15427] READ LOCK: /home/ghartzell/.spack/cache/tags/.builtin-index.json.lock[0:0] [Acquired at 15:43:15.541416] | |
| ==> [2020-02-28-15:43:15.541831, 15427] READ LOCK: /home/ghartzell/.spack/cache/tags/.builtin-index.json.lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:15.541892, 15427] READ LOCK: /home/ghartzell/.spack/cache/tags/.builtin-index.json.lock[0:0] [Released at 15:43:15.541877] | |
| ==> [2020-02-28-15:43:15.544169, 15427] READ LOCK: /home/ghartzell/.spack/cache/patches/.builtin-index.json.lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:15.544259, 15427] read locking [0:0]: timeout 120 sec | |
| ==> [2020-02-28-15:43:15.544317, 15427] READ LOCK: /home/ghartzell/.spack/cache/patches/.builtin-index.json.lock[0:0] [Acquired at 15:43:15.544301] | |
| ==> [2020-02-28-15:43:15.556619, 15427] READ LOCK: /home/ghartzell/.spack/cache/patches/.builtin-index.json.lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:15.556702, 15427] READ LOCK: /home/ghartzell/.spack/cache/patches/.builtin-index.json.lock[0:0] [Released at 15:43:15.556684] | |
| ==> [2020-02-28-15:43:15.558921, 15427] READ LOCK: /home/ghartzell/.spack/cache/providers/.builtin-index.json.lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:15.559010, 15427] read locking [0:0]: timeout 120 sec | |
| ==> [2020-02-28-15:43:15.559068, 15427] READ LOCK: /home/ghartzell/.spack/cache/providers/.builtin-index.json.lock[0:0] [Acquired at 15:43:15.559051] | |
| ==> [2020-02-28-15:43:15.574600, 15427] READ LOCK: /home/ghartzell/.spack/cache/providers/.builtin-index.json.lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:15.574689, 15427] READ LOCK: /home/ghartzell/.spack/cache/providers/.builtin-index.json.lock[0:0] [Released at 15:43:15.574671] | |
| ==> [2020-02-28-15:43:15.606449, 15427] Reading config file /home/ghartzell/.spack/linux/compilers.yaml | |
| ==> [2020-02-28-15:43:16.034581, 15427] Ordered hashes [findutils]: findutils/4/84b916c0bf8c51b7e7b28417692f0ad3e7030d1f3c248ba77c42ede5c1c5d11e, findutils/5/bd9e4e5cc280f9753ae14956c4e4aa17fe7a210f55dd6c84aa60b12d106d47a2 | |
| ==> [2020-02-28-15:43:16.034810, 15427] Ordered hashes [m4]: m4/21/3877ab548f88597ab2327a2230ee048d2d07ace1062efe81fc92e91b7f39cd00, m4/26/fc9b61654a3ba1a8d6cd78ce087e7c96366c290bc8d2c299f09828d793b853c8 | |
| ==> [2020-02-28-15:43:16.035020, 15427] Ordered hashes [texinfo]: texinfo/27/1732115f651cff98989cb0215d8f64da5e0f7911ebf0c13b064920f088f2ffe1, texinfo/30/12f6edb0c6b270b8c8dba2ce17998c580db01182d871ee32b7b6e4129bd1d23a | |
| ==> [2020-02-28-15:43:16.037094, 15427] DATABASE LOCK TIMEOUT: 3s | |
| ==> [2020-02-28-15:43:16.037147, 15427] PACKAGE LOCK TIMEOUT: No timeout | |
| ==> [2020-02-28-15:43:16.037534, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.037613, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.037670, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.037654] | |
| ==> [2020-02-28-15:43:16.135380, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.135473, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.135454] | |
| ==> [2020-02-28-15:43:16.137918, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.138011, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.138069, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.138053] | |
| ==> [2020-02-28-15:43:16.144454, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.144545, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.144526] | |
| ==> [2020-02-28-15:43:16.144587, 15427] Initializing the build queue for kallisto | |
| ==> [2020-02-28-15:43:16.145454, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4103574261420948325:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.145547, 15427] read locking [4103574261420948325:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.145606, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4103574261420948325:1] [Acquired at 15:43:16.145589] | |
| ==> [2020-02-28-15:43:16.145642, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4103574261420948325:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.145689, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4103574261420948325:1] [Released at 15:43:16.145676] | |
| ==> [2020-02-28-15:43:16.145737, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.145795, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.145841, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.145827] | |
| ==> [2020-02-28-15:43:16.152287, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.152375, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.152357] | |
| ==> [2020-02-28-15:43:16.165644, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[9182401470845626450:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.166016, 15427] read locking [9182401470845626450:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.166081, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[9182401470845626450:1] [Acquired at 15:43:16.166064] | |
| ==> [2020-02-28-15:43:16.166118, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[9182401470845626450:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.166182, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[9182401470845626450:1] [Released at 15:43:16.166167] | |
| ==> [2020-02-28-15:43:16.166253, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.166315, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.166364, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.166349] | |
| ==> [2020-02-28-15:43:16.173021, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.173108, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.173090] | |
| ==> [2020-02-28-15:43:16.193025, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3930063119596288559:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.193429, 15427] read locking [3930063119596288559:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.193507, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3930063119596288559:1] [Acquired at 15:43:16.193477] | |
| ==> [2020-02-28-15:43:16.193543, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3930063119596288559:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.193592, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3930063119596288559:1] [Released at 15:43:16.193578] | |
| ==> [2020-02-28-15:43:16.193640, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.193698, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.193745, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.193731] | |
| ==> [2020-02-28-15:43:16.200461, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.200847, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.200825] | |
| ==> [2020-02-28-15:43:16.214635, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2407439212115139591:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.215003, 15427] read locking [2407439212115139591:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.215067, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2407439212115139591:1] [Acquired at 15:43:16.215049] | |
| ==> [2020-02-28-15:43:16.215103, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2407439212115139591:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.215166, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2407439212115139591:1] [Released at 15:43:16.215137] | |
| ==> [2020-02-28-15:43:16.215234, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.215296, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.215344, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.215330] | |
| ==> [2020-02-28-15:43:16.222802, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.222891, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.222872] | |
| ==> [2020-02-28-15:43:16.236647, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7581992337637040499:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.237014, 15427] read locking [7581992337637040499:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.237079, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7581992337637040499:1] [Acquired at 15:43:16.237061] | |
| ==> [2020-02-28-15:43:16.237116, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7581992337637040499:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.237203, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7581992337637040499:1] [Released at 15:43:16.237187] | |
| ==> [2020-02-28-15:43:16.237255, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.237317, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.237366, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.237352] | |
| ==> [2020-02-28-15:43:16.244006, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.244094, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.244075] | |
| ==> [2020-02-28-15:43:16.263673, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5435317909244142796:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.264041, 15427] read locking [5435317909244142796:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.264107, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5435317909244142796:1] [Acquired at 15:43:16.264089] | |
| ==> [2020-02-28-15:43:16.264143, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5435317909244142796:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.264234, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5435317909244142796:1] [Released at 15:43:16.264219] | |
| ==> [2020-02-28-15:43:16.264285, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.264347, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.264395, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.264380] | |
| ==> [2020-02-28-15:43:16.270942, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.271030, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.271012] | |
| ==> [2020-02-28-15:43:16.284506, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6676204559265636302:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.284883, 15427] read locking [6676204559265636302:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.284950, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6676204559265636302:1] [Acquired at 15:43:16.284931] | |
| ==> [2020-02-28-15:43:16.284987, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6676204559265636302:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.285036, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6676204559265636302:1] [Released at 15:43:16.285022] | |
| ==> [2020-02-28-15:43:16.285084, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.285143, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.285238, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.285222] | |
| ==> [2020-02-28-15:43:16.291989, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.292083, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.292064] | |
| ==> [2020-02-28-15:43:16.309364, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[421342217498973626:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.309734, 15427] read locking [421342217498973626:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.309799, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[421342217498973626:1] [Acquired at 15:43:16.309782] | |
| ==> [2020-02-28-15:43:16.309836, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[421342217498973626:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.309884, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[421342217498973626:1] [Released at 15:43:16.309870] | |
| ==> [2020-02-28-15:43:16.309933, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.309991, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.310037, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.310023] | |
| ==> [2020-02-28-15:43:16.316574, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.316664, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.316646] | |
| ==> [2020-02-28-15:43:16.335768, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[19748259578794650:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.336140, 15427] read locking [19748259578794650:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.336254, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[19748259578794650:1] [Acquired at 15:43:16.336233] | |
| ==> [2020-02-28-15:43:16.336292, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[19748259578794650:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.336342, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[19748259578794650:1] [Released at 15:43:16.336328] | |
| ==> [2020-02-28-15:43:16.336393, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.336456, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.336504, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.336490] | |
| ==> [2020-02-28-15:43:16.343113, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.343223, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.343203] | |
| ==> [2020-02-28-15:43:16.363280, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[891283640741128596:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.363652, 15427] read locking [891283640741128596:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.363718, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[891283640741128596:1] [Acquired at 15:43:16.363700] | |
| ==> [2020-02-28-15:43:16.363754, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[891283640741128596:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.363803, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[891283640741128596:1] [Released at 15:43:16.363788] | |
| ==> [2020-02-28-15:43:16.363851, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.363909, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.363957, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.363943] | |
| ==> [2020-02-28-15:43:16.370613, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.371002, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.370980] | |
| ==> [2020-02-28-15:43:16.395870, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6411631660638173636:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.396258, 15427] read locking [6411631660638173636:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.396326, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6411631660638173636:1] [Acquired at 15:43:16.396308] | |
| ==> [2020-02-28-15:43:16.396363, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6411631660638173636:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.396412, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6411631660638173636:1] [Released at 15:43:16.396398] | |
| ==> [2020-02-28-15:43:16.396461, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.396519, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.396566, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.396552] | |
| ==> [2020-02-28-15:43:16.403186, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.403277, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.403258] | |
| ==> [2020-02-28-15:43:16.425330, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4990548866346048231:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.425703, 15427] read locking [4990548866346048231:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.425768, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4990548866346048231:1] [Acquired at 15:43:16.425750] | |
| ==> [2020-02-28-15:43:16.425805, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4990548866346048231:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.425853, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4990548866346048231:1] [Released at 15:43:16.425840] | |
| ==> [2020-02-28-15:43:16.425902, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.425960, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.426006, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.425992] | |
| ==> [2020-02-28-15:43:16.432830, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.433236, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.433211] | |
| ==> [2020-02-28-15:43:16.448013, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[8701080332429443741:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.448400, 15427] read locking [8701080332429443741:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.448467, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[8701080332429443741:1] [Acquired at 15:43:16.448448] | |
| ==> [2020-02-28-15:43:16.448504, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[8701080332429443741:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.448552, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[8701080332429443741:1] [Released at 15:43:16.448538] | |
| ==> [2020-02-28-15:43:16.448600, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.448659, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.448705, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.448691] | |
| ==> [2020-02-28-15:43:16.455368, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.455459, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.455440] | |
| ==> [2020-02-28-15:43:16.470116, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5399659524313282114:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.470537, 15427] read locking [5399659524313282114:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.470606, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5399659524313282114:1] [Acquired at 15:43:16.470587] | |
| ==> [2020-02-28-15:43:16.470644, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5399659524313282114:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.470705, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5399659524313282114:1] [Released at 15:43:16.470691] | |
| ==> [2020-02-28-15:43:16.470753, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.470812, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.470858, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.470844] | |
| ==> [2020-02-28-15:43:16.478105, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.478211, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.478191] | |
| ==> [2020-02-28-15:43:16.500325, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5936111944215486362:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.500727, 15427] read locking [5936111944215486362:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.500793, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5936111944215486362:1] [Acquired at 15:43:16.500775] | |
| ==> [2020-02-28-15:43:16.500830, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5936111944215486362:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.500879, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5936111944215486362:1] [Released at 15:43:16.500865] | |
| ==> [2020-02-28-15:43:16.500927, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.500986, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.501033, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.501019] | |
| ==> [2020-02-28-15:43:16.507645, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.508018, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.507996] | |
| ==> [2020-02-28-15:43:16.524244, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5341325450127862738:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.524618, 15427] read locking [5341325450127862738:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.524685, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5341325450127862738:1] [Acquired at 15:43:16.524666] | |
| ==> [2020-02-28-15:43:16.524722, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5341325450127862738:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.524770, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5341325450127862738:1] [Released at 15:43:16.524756] | |
| ==> [2020-02-28-15:43:16.524819, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.524878, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.524925, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.524911] | |
| ==> [2020-02-28-15:43:16.531274, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.531364, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.531346] | |
| ==> [2020-02-28-15:43:16.543636, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2595424403544884717:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.544009, 15427] read locking [2595424403544884717:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.544074, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2595424403544884717:1] [Acquired at 15:43:16.544056] | |
| ==> [2020-02-28-15:43:16.544111, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2595424403544884717:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.544176, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2595424403544884717:1] [Released at 15:43:16.544145] | |
| ==> [2020-02-28-15:43:16.544246, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.544307, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.544355, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.544341] | |
| ==> [2020-02-28-15:43:16.551039, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.551130, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.551111] | |
| ==> [2020-02-28-15:43:16.563644, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3634818450716040914:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.564027, 15427] read locking [3634818450716040914:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.564092, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3634818450716040914:1] [Acquired at 15:43:16.564074] | |
| ==> [2020-02-28-15:43:16.564128, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3634818450716040914:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.564219, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3634818450716040914:1] [Released at 15:43:16.564186] | |
| ==> [2020-02-28-15:43:16.564271, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.564333, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.564381, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.564367] | |
| ==> [2020-02-28-15:43:16.571254, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.571347, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.571328] | |
| ==> [2020-02-28-15:43:16.591366, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2677960441037545206:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.591739, 15427] read locking [2677960441037545206:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.591804, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2677960441037545206:1] [Acquired at 15:43:16.591786] | |
| ==> [2020-02-28-15:43:16.591840, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2677960441037545206:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.591887, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2677960441037545206:1] [Released at 15:43:16.591874] | |
| ==> [2020-02-28-15:43:16.591935, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.591993, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.592041, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.592026] | |
| ==> [2020-02-28-15:43:16.598796, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.599188, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.599149] | |
| ==> [2020-02-28-15:43:16.611426, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[1105620656055997487:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.611800, 15427] read locking [1105620656055997487:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.611865, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[1105620656055997487:1] [Acquired at 15:43:16.611847] | |
| ==> [2020-02-28-15:43:16.611902, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[1105620656055997487:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.611949, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[1105620656055997487:1] [Released at 15:43:16.611936] | |
| ==> [2020-02-28-15:43:16.611998, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.612057, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.612103, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.612089] | |
| ==> [2020-02-28-15:43:16.618859, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.618950, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.618931] | |
| ==> [2020-02-28-15:43:16.634336, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[583098902804284785:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.634709, 15427] read locking [583098902804284785:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.634774, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[583098902804284785:1] [Acquired at 15:43:16.634756] | |
| ==> [2020-02-28-15:43:16.634811, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[583098902804284785:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.634859, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[583098902804284785:1] [Released at 15:43:16.634845] | |
| ==> [2020-02-28-15:43:16.634908, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.634966, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.635013, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.634999] | |
| ==> [2020-02-28-15:43:16.642858, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.642952, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.642933] | |
| ==> [2020-02-28-15:43:16.664423, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2210963506724435862:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.664797, 15427] read locking [2210963506724435862:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.664862, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2210963506724435862:1] [Acquired at 15:43:16.664844] | |
| ==> [2020-02-28-15:43:16.664899, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2210963506724435862:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.664947, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2210963506724435862:1] [Released at 15:43:16.664933] | |
| ==> [2020-02-28-15:43:16.664995, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.665052, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.665098, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.665084] | |
| ==> [2020-02-28-15:43:16.671555, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.671647, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.671629] | |
| ==> [2020-02-28-15:43:16.684633, 15427] READ LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.684732, 15427] read locking [7518767720161644430:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.684793, 15427] READ LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Acquired at 15:43:16.684775] | |
| ==> [2020-02-28-15:43:16.684830, 15427] READ LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.684877, 15427] READ LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Released at 15:43:16.684863] | |
| ==> [2020-02-28-15:43:16.684925, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.684983, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.685030, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.685016] | |
| ==> [2020-02-28-15:43:16.691441, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.691532, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.691514] | |
| ==> [2020-02-28-15:43:16.691593, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.691663, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.691714, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.691699] | |
| ==> [2020-02-28-15:43:16.698668, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.698756, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.698738] | |
| ==> [2020-02-28-15:43:16.712721, 15427] Removing failure marking for kallisto | |
| ==> [2020-02-28-15:43:16.713196, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.713283, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.713341, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.713324] | |
| ==> [2020-02-28-15:43:16.719713, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.719801, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.719782] | |
| ==> [2020-02-28-15:43:16.720292, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4103574261420948325:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.720399, 15427] read locking [4103574261420948325:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.720457, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4103574261420948325:1] [Acquired at 15:43:16.720440] | |
| ==> [2020-02-28-15:43:16.720493, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4103574261420948325:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.720540, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4103574261420948325:1] [Released at 15:43:16.720527] | |
| ==> [2020-02-28-15:43:16.720595, 15427] Acquiring a write lock on pkgconf with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.720979, 15427] WRITE LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4103574261420948325:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.721057, 15427] write locking [4103574261420948325:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.721111, 15427] WRITE LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4103574261420948325:1] [Acquired at 15:43:16.721095] | |
| ==> [2020-02-28-15:43:16.721184, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.721247, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.721295, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.721281] | |
| ==> [2020-02-28-15:43:16.727539, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.727629, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.727610] | |
| ==> [2020-02-28-15:43:16.727673, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.727741, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.727791, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.727776] | |
| ==> [2020-02-28-15:43:16.734203, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.734290, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.734272] | |
| ==> [2020-02-28-15:43:16.742962, 15427] Creating stage lock spack-stage-pkgconf-1.6.3-ohs2mgjc3t3mwk7tmvryh5r5rsuyyqvq | |
| ==> [2020-02-28-15:43:16.743643, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.743727, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.743784, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.743767] | |
| ==> [2020-02-28-15:43:16.750529, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.750619, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.750600] | |
| ==> [2020-02-28-15:43:16.757098, 15427] Flagging pkgconf as installed | |
| ==> [2020-02-28-15:43:16.757175, 15427] Removing pkgconf from mpich's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.757239, 15427] mpich: Removed pkgconf from uninstalled deps list: set(['libxml2', 'libpciaccess', 'findutils']) | |
| ==> [2020-02-28-15:43:16.757324, 15427] Removing pkgconf from libxml2's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.757362, 15427] libxml2: Removed pkgconf from uninstalled deps list: set(['libiconv', 'xz', 'zlib']) | |
| ==> [2020-02-28-15:43:16.757430, 15427] Removing pkgconf from ncurses's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.757464, 15427] ncurses: Removed pkgconf from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:16.757535, 15427] Removing pkgconf from libpciaccess's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.757568, 15427] libpciaccess: Removed pkgconf from uninstalled deps list: set(['util-macros', 'libtool']) | |
| ==> [2020-02-28-15:43:16.757658, 15427] Downgrading to a read lock on pkgconf with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.757696, 15427] WRITE LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4103574261420948325:1] [Downgrading] | |
| ==> [2020-02-28-15:43:16.757731, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4103574261420948325:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.757761, 15427] read locking [4103574261420948325:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.757808, 15427] READ LOCK (pkgconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4103574261420948325:1] [Downgraded at 15:43:16.757794] | |
| ==> [2020-02-28-15:43:16.757839, 15427] Flagging pkgconf as installed | |
| ==> [2020-02-28-15:43:16.757865, 15427] Removing pkgconf from mpich's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.757931, 15427] Removing pkgconf from libxml2's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.757994, 15427] Removing pkgconf from ncurses's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.758047, 15427] Removing pkgconf from libpciaccess's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/pkgconf-1.6.3-ohs2mgjc3t3mwk7tmvryh5r5rsuyyqvq | |
| ==> [2020-02-28-15:43:16.758187, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.758260, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.758310, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.758295] | |
| ==> [2020-02-28-15:43:16.764735, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.764823, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.764805] | |
| ==> [2020-02-28-15:43:16.765312, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5435317909244142796:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.765400, 15427] read locking [5435317909244142796:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.765457, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5435317909244142796:1] [Acquired at 15:43:16.765441] | |
| ==> [2020-02-28-15:43:16.765492, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5435317909244142796:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.765539, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5435317909244142796:1] [Released at 15:43:16.765526] | |
| ==> [2020-02-28-15:43:16.765590, 15427] Acquiring a write lock on zlib with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.765959, 15427] WRITE LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5435317909244142796:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.766036, 15427] write locking [5435317909244142796:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.766091, 15427] WRITE LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5435317909244142796:1] [Acquired at 15:43:16.766075] | |
| ==> [2020-02-28-15:43:16.766164, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.766229, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.766277, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.766263] | |
| ==> [2020-02-28-15:43:16.772683, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.772771, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.772752] | |
| ==> [2020-02-28-15:43:16.772815, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.772882, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.772932, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.772917] | |
| ==> [2020-02-28-15:43:16.779211, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.779298, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.779280] | |
| ==> [2020-02-28-15:43:16.787243, 15427] Creating stage lock spack-stage-zlib-1.2.11-s3oedluluhezqxgxgjx6g3tllytxygkx | |
| ==> [2020-02-28-15:43:16.787932, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.788015, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.788073, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.788056] | |
| ==> [2020-02-28-15:43:16.796012, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.796102, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.796083] | |
| ==> [2020-02-28-15:43:16.802830, 15427] Flagging zlib as installed | |
| ==> [2020-02-28-15:43:16.802888, 15427] Removing zlib from libxml2's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.802929, 15427] libxml2: Removed zlib from uninstalled deps list: set(['libiconv', 'xz']) | |
| ==> [2020-02-28-15:43:16.803006, 15427] Removing zlib from kallisto's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.803042, 15427] kallisto: Removed zlib from uninstalled deps list: set(['mpich', 'cmake', 'hdf5']) | |
| ==> [2020-02-28-15:43:16.803105, 15427] Removing zlib from openssl's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.803139, 15427] openssl: Removed zlib from uninstalled deps list: set(['perl']) | |
| ==> [2020-02-28-15:43:16.803217, 15427] Removing zlib from hdf5's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.803251, 15427] hdf5: Removed zlib from uninstalled deps list: set(['mpich']) | |
| ==> [2020-02-28-15:43:16.803336, 15427] Downgrading to a read lock on zlib with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.803374, 15427] WRITE LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5435317909244142796:1] [Downgrading] | |
| ==> [2020-02-28-15:43:16.803409, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5435317909244142796:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.803440, 15427] read locking [5435317909244142796:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.803488, 15427] READ LOCK (zlib): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5435317909244142796:1] [Downgraded at 15:43:16.803473] | |
| ==> [2020-02-28-15:43:16.803518, 15427] Flagging zlib as installed | |
| ==> [2020-02-28-15:43:16.803544, 15427] Removing zlib from libxml2's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.803607, 15427] Removing zlib from kallisto's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.803666, 15427] Removing zlib from openssl's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.803720, 15427] Removing zlib from hdf5's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/zlib-1.2.11-s3oedluluhezqxgxgjx6g3tllytxygkx | |
| ==> [2020-02-28-15:43:16.803827, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.803894, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.803943, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.803929] | |
| ==> [2020-02-28-15:43:16.810168, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.810275, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.810256] | |
| ==> [2020-02-28-15:43:16.810775, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[19748259578794650:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.810859, 15427] read locking [19748259578794650:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.810916, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[19748259578794650:1] [Acquired at 15:43:16.810899] | |
| ==> [2020-02-28-15:43:16.810951, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[19748259578794650:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.810998, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[19748259578794650:1] [Released at 15:43:16.810985] | |
| ==> [2020-02-28-15:43:16.811050, 15427] Acquiring a write lock on libsigsegv with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.811652, 15427] WRITE LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[19748259578794650:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.811791, 15427] write locking [19748259578794650:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.811855, 15427] WRITE LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[19748259578794650:1] [Acquired at 15:43:16.811837] | |
| ==> [2020-02-28-15:43:16.811925, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.811986, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.812035, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.812020] | |
| ==> [2020-02-28-15:43:16.818434, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.818533, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.818514] | |
| ==> [2020-02-28-15:43:16.818577, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.818646, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.818697, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.818682] | |
| ==> [2020-02-28-15:43:16.824984, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.825076, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.825057] | |
| ==> [2020-02-28-15:43:16.840014, 15427] Creating stage lock spack-stage-libsigsegv-2.12-acgfdx72icstjg5gx6fecpbk7jrlmlgp | |
| ==> [2020-02-28-15:43:16.840764, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.840853, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.840912, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.840895] | |
| ==> [2020-02-28-15:43:16.847509, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.847601, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.847583] | |
| ==> [2020-02-28-15:43:16.854133, 15427] Flagging libsigsegv as installed | |
| ==> [2020-02-28-15:43:16.854216, 15427] Removing libsigsegv from m4's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.854258, 15427] m4: Removed libsigsegv from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:16.854364, 15427] Downgrading to a read lock on libsigsegv with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.854404, 15427] WRITE LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[19748259578794650:1] [Downgrading] | |
| ==> [2020-02-28-15:43:16.854441, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[19748259578794650:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.854473, 15427] read locking [19748259578794650:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.854522, 15427] READ LOCK (libsigsegv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[19748259578794650:1] [Downgraded at 15:43:16.854507] | |
| ==> [2020-02-28-15:43:16.854552, 15427] Flagging libsigsegv as installed | |
| ==> [2020-02-28-15:43:16.854579, 15427] Removing libsigsegv from m4's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/libsigsegv-2.12-acgfdx72icstjg5gx6fecpbk7jrlmlgp | |
| ==> [2020-02-28-15:43:16.854692, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.854760, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.854808, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.854794] | |
| ==> [2020-02-28-15:43:16.861094, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.861196, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.861177] | |
| ==> [2020-02-28-15:43:16.861690, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5341325450127862738:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.862050, 15427] read locking [5341325450127862738:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.862113, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5341325450127862738:1] [Acquired at 15:43:16.862095] | |
| ==> [2020-02-28-15:43:16.862166, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5341325450127862738:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.862240, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5341325450127862738:1] [Released at 15:43:16.862225] | |
| ==> [2020-02-28-15:43:16.862295, 15427] Acquiring a write lock on util-macros with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.862688, 15427] WRITE LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5341325450127862738:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.862767, 15427] write locking [5341325450127862738:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.862823, 15427] WRITE LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5341325450127862738:1] [Acquired at 15:43:16.862807] | |
| ==> [2020-02-28-15:43:16.862882, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.862941, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.862989, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.862975] | |
| ==> [2020-02-28-15:43:16.869681, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.869772, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.869754] | |
| ==> [2020-02-28-15:43:16.869817, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.869886, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.869937, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.869922] | |
| ==> [2020-02-28-15:43:16.876290, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.876382, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.876363] | |
| ==> [2020-02-28-15:43:16.885010, 15427] Creating stage lock spack-stage-util-macros-1.19.1-sragmzijh7l2jveuzxpvkcimwzar3dxc | |
| ==> [2020-02-28-15:43:16.885712, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.885800, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.885858, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.885842] | |
| ==> [2020-02-28-15:43:16.893933, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.894027, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.894008] | |
| ==> [2020-02-28-15:43:16.900500, 15427] Flagging util-macros as installed | |
| ==> [2020-02-28-15:43:16.900563, 15427] Removing util-macros from libpciaccess's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.900605, 15427] libpciaccess: Removed util-macros from uninstalled deps list: set(['libtool']) | |
| ==> [2020-02-28-15:43:16.900730, 15427] Downgrading to a read lock on util-macros with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.900771, 15427] WRITE LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5341325450127862738:1] [Downgrading] | |
| ==> [2020-02-28-15:43:16.900809, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5341325450127862738:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.900840, 15427] read locking [5341325450127862738:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.900889, 15427] READ LOCK (util-macros): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5341325450127862738:1] [Downgraded at 15:43:16.900874] | |
| ==> [2020-02-28-15:43:16.900920, 15427] Flagging util-macros as installed | |
| ==> [2020-02-28-15:43:16.900947, 15427] Removing util-macros from libpciaccess's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/util-macros-1.19.1-sragmzijh7l2jveuzxpvkcimwzar3dxc | |
| ==> [2020-02-28-15:43:16.901063, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.901131, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.901222, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.901184] | |
| ==> [2020-02-28-15:43:16.907483, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.907578, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.907558] | |
| ==> [2020-02-28-15:43:16.908060, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3634818450716040914:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.908145, 15427] read locking [3634818450716040914:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.908225, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3634818450716040914:1] [Acquired at 15:43:16.908207] | |
| ==> [2020-02-28-15:43:16.908260, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3634818450716040914:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.908308, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3634818450716040914:1] [Released at 15:43:16.908294] | |
| ==> [2020-02-28-15:43:16.908360, 15427] Acquiring a write lock on libiconv with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.908733, 15427] WRITE LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3634818450716040914:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.908812, 15427] write locking [3634818450716040914:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.908868, 15427] WRITE LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3634818450716040914:1] [Acquired at 15:43:16.908852] | |
| ==> [2020-02-28-15:43:16.908927, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.908987, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.909035, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.909020] | |
| ==> [2020-02-28-15:43:16.915380, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.915474, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.915455] | |
| ==> [2020-02-28-15:43:16.915519, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.915589, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.915641, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.915624] | |
| ==> [2020-02-28-15:43:16.922120, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.922248, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.922227] | |
| ==> [2020-02-28-15:43:16.937779, 15427] Creating stage lock spack-stage-libiconv-1.16-mtrpapxd5y62i7hyydroch236qi6ttml | |
| ==> [2020-02-28-15:43:16.938663, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.938761, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.938821, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.938804] | |
| ==> [2020-02-28-15:43:16.945759, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.945852, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.945833] | |
| ==> [2020-02-28-15:43:16.952285, 15427] Flagging libiconv as installed | |
| ==> [2020-02-28-15:43:16.952347, 15427] Removing libiconv from libxml2's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.952389, 15427] libxml2: Removed libiconv from uninstalled deps list: set(['xz']) | |
| ==> [2020-02-28-15:43:16.952513, 15427] Downgrading to a read lock on libiconv with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.952553, 15427] WRITE LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3634818450716040914:1] [Downgrading] | |
| ==> [2020-02-28-15:43:16.952589, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3634818450716040914:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.952622, 15427] read locking [3634818450716040914:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.952671, 15427] READ LOCK (libiconv): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3634818450716040914:1] [Downgraded at 15:43:16.952656] | |
| ==> [2020-02-28-15:43:16.952702, 15427] Flagging libiconv as installed | |
| ==> [2020-02-28-15:43:16.952728, 15427] Removing libiconv from libxml2's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/libiconv-1.16-mtrpapxd5y62i7hyydroch236qi6ttml | |
| ==> [2020-02-28-15:43:16.952846, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.952915, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.952964, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.952950] | |
| ==> [2020-02-28-15:43:16.959379, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.959472, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.959453] | |
| ==> [2020-02-28-15:43:16.959979, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2677960441037545206:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.960390, 15427] read locking [2677960441037545206:1]: timeout None sec | |
| ==> [2020-02-28-15:43:16.960458, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2677960441037545206:1] [Acquired at 15:43:16.960440] | |
| ==> [2020-02-28-15:43:16.960494, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2677960441037545206:1] [Releasing] | |
| ==> [2020-02-28-15:43:16.960543, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2677960441037545206:1] [Released at 15:43:16.960529] | |
| ==> [2020-02-28-15:43:16.960596, 15427] Acquiring a write lock on xz with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.960984, 15427] WRITE LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2677960441037545206:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.961062, 15427] write locking [2677960441037545206:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.961118, 15427] WRITE LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2677960441037545206:1] [Acquired at 15:43:16.961102] | |
| ==> [2020-02-28-15:43:16.961213, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.961280, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.961331, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.961316] | |
| ==> [2020-02-28-15:43:16.968113, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.968222, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.968201] | |
| ==> [2020-02-28-15:43:16.968269, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.968338, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.968389, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.968374] | |
| ==> [2020-02-28-15:43:16.974702, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.974790, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.974772] | |
| ==> [2020-02-28-15:43:16.983047, 15427] Creating stage lock spack-stage-xz-5.2.4-jjka3ksvf266znwongyct5ebdcwnzvyp | |
| ==> [2020-02-28-15:43:16.983742, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.983828, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.983886, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.983870] | |
| ==> [2020-02-28-15:43:16.991776, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:16.991869, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:16.991850] | |
| ==> [2020-02-28-15:43:16.998407, 15427] Flagging xz as installed | |
| ==> [2020-02-28-15:43:16.998469, 15427] Removing xz from libxml2's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:16.998509, 15427] libxml2: Removed xz from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:16.998617, 15427] Downgrading to a read lock on xz with timeout 1e-09 | |
| ==> [2020-02-28-15:43:16.998657, 15427] WRITE LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2677960441037545206:1] [Downgrading] | |
| ==> [2020-02-28-15:43:16.998695, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2677960441037545206:1] [Acquiring] | |
| ==> [2020-02-28-15:43:16.998726, 15427] read locking [2677960441037545206:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:16.998775, 15427] READ LOCK (xz): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2677960441037545206:1] [Downgraded at 15:43:16.998760] | |
| ==> [2020-02-28-15:43:16.998805, 15427] Flagging xz as installed | |
| ==> [2020-02-28-15:43:16.998832, 15427] Removing xz from libxml2's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/xz-5.2.4-jjka3ksvf266znwongyct5ebdcwnzvyp | |
| ==> [2020-02-28-15:43:16.998951, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:16.999019, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:16.999069, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:16.999054] | |
| ==> [2020-02-28-15:43:17.005328, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.005423, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.005404] | |
| ==> [2020-02-28-15:43:17.005936, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[9182401470845626450:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.006021, 15427] read locking [9182401470845626450:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.006078, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[9182401470845626450:1] [Acquired at 15:43:17.006061] | |
| ==> [2020-02-28-15:43:17.006113, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[9182401470845626450:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.006183, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[9182401470845626450:1] [Released at 15:43:17.006147] | |
| ==> [2020-02-28-15:43:17.006238, 15427] Acquiring a write lock on ncurses with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.006611, 15427] WRITE LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[9182401470845626450:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.006690, 15427] write locking [9182401470845626450:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.006747, 15427] WRITE LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[9182401470845626450:1] [Acquired at 15:43:17.006731] | |
| ==> [2020-02-28-15:43:17.006805, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.006864, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.006912, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.006898] | |
| ==> [2020-02-28-15:43:17.013253, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.013343, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.013324] | |
| ==> [2020-02-28-15:43:17.013388, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.013456, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.013508, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.013493] | |
| ==> [2020-02-28-15:43:17.019777, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.019867, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.019848] | |
| ==> [2020-02-28-15:43:17.035376, 15427] Creating stage lock spack-stage-ncurses-6.1-73oof6l5rzikkjvwckaoocbzyg4bvsup | |
| ==> [2020-02-28-15:43:17.036064, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.036148, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.036254, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.036236] | |
| ==> [2020-02-28-15:43:17.042885, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.042975, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.042956] | |
| ==> [2020-02-28-15:43:17.049895, 15427] Flagging ncurses as installed | |
| ==> [2020-02-28-15:43:17.049954, 15427] Removing ncurses from readline's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.049994, 15427] readline: Removed ncurses from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.050061, 15427] Removing ncurses from cmake's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.050097, 15427] cmake: Removed ncurses from uninstalled deps list: set(['openssl']) | |
| ==> [2020-02-28-15:43:17.050203, 15427] Downgrading to a read lock on ncurses with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.050245, 15427] WRITE LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[9182401470845626450:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.050291, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[9182401470845626450:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.050342, 15427] read locking [9182401470845626450:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.050393, 15427] READ LOCK (ncurses): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[9182401470845626450:1] [Downgraded at 15:43:17.050377] | |
| ==> [2020-02-28-15:43:17.050425, 15427] Flagging ncurses as installed | |
| ==> [2020-02-28-15:43:17.050453, 15427] Removing ncurses from readline's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.050512, 15427] Removing ncurses from cmake's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/ncurses-6.1-73oof6l5rzikkjvwckaoocbzyg4bvsup | |
| ==> [2020-02-28-15:43:17.050627, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.050707, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.050757, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.050742] | |
| ==> [2020-02-28-15:43:17.057030, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.057118, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.057099] | |
| ==> [2020-02-28-15:43:17.057700, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[891283640741128596:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.058065, 15427] read locking [891283640741128596:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.058129, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[891283640741128596:1] [Acquired at 15:43:17.058111] | |
| ==> [2020-02-28-15:43:17.058182, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[891283640741128596:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.058233, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[891283640741128596:1] [Released at 15:43:17.058219] | |
| ==> [2020-02-28-15:43:17.058286, 15427] Acquiring a write lock on m4 with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.058663, 15427] WRITE LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[891283640741128596:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.058741, 15427] write locking [891283640741128596:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.058797, 15427] WRITE LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[891283640741128596:1] [Acquired at 15:43:17.058781] | |
| ==> [2020-02-28-15:43:17.058856, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.058915, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.058963, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.058949] | |
| ==> [2020-02-28-15:43:17.065592, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.065685, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.065666] | |
| ==> [2020-02-28-15:43:17.065731, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.065798, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.065849, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.065834] | |
| ==> [2020-02-28-15:43:17.073509, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.073599, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.073581] | |
| ==> [2020-02-28-15:43:17.090964, 15427] Creating stage lock spack-stage-m4-1.4.18-dc6pg74a7pjst7sswy6hxk7tld7gkgzl | |
| ==> [2020-02-28-15:43:17.091647, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.091732, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.091790, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.091773] | |
| ==> [2020-02-28-15:43:17.098326, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.098417, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.098398] | |
| ==> [2020-02-28-15:43:17.111850, 15427] Flagging m4 as installed | |
| ==> [2020-02-28-15:43:17.111909, 15427] Removing m4 from autoconf's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.111950, 15427] autoconf: Removed m4 from uninstalled deps list: set(['perl']) | |
| ==> [2020-02-28-15:43:17.112023, 15427] Removing m4 from libtool's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.112057, 15427] libtool: Removed m4 from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.112114, 15427] Removing m4 from findutils's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.112148, 15427] findutils: Removed m4 from uninstalled deps list: set(['libtool', 'autoconf', 'texinfo', 'automake']) | |
| ==> [2020-02-28-15:43:17.112423, 15427] Downgrading to a read lock on m4 with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.112503, 15427] WRITE LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[891283640741128596:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.112548, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[891283640741128596:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.112584, 15427] read locking [891283640741128596:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.112636, 15427] READ LOCK (m4): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[891283640741128596:1] [Downgraded at 15:43:17.112620] | |
| ==> [2020-02-28-15:43:17.112680, 15427] Flagging m4 as installed | |
| ==> [2020-02-28-15:43:17.112709, 15427] Removing m4 from autoconf's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.112784, 15427] Removing m4 from libtool's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.112845, 15427] Removing m4 from findutils's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/m4-1.4.18-dc6pg74a7pjst7sswy6hxk7tld7gkgzl | |
| ==> [2020-02-28-15:43:17.112969, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.113039, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.113088, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.113074] | |
| ==> [2020-02-28-15:43:17.119285, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.119371, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.119353] | |
| ==> [2020-02-28-15:43:17.119836, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[1105620656055997487:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.119918, 15427] read locking [1105620656055997487:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.119974, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[1105620656055997487:1] [Acquired at 15:43:17.119958] | |
| ==> [2020-02-28-15:43:17.120009, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[1105620656055997487:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.120056, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[1105620656055997487:1] [Released at 15:43:17.120042] | |
| ==> [2020-02-28-15:43:17.120106, 15427] Acquiring a write lock on libxml2 with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.120528, 15427] WRITE LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[1105620656055997487:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.120624, 15427] write locking [1105620656055997487:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.120680, 15427] WRITE LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[1105620656055997487:1] [Acquired at 15:43:17.120664] | |
| ==> [2020-02-28-15:43:17.120739, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.120798, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.120846, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.120831] | |
| ==> [2020-02-28-15:43:17.127130, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.127238, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.127218] | |
| ==> [2020-02-28-15:43:17.127283, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.127351, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.127402, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.127387] | |
| ==> [2020-02-28-15:43:17.133655, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.133743, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.133725] | |
| ==> [2020-02-28-15:43:17.142411, 15427] Creating stage lock spack-stage-libxml2-2.9.9-d2x6qqpzdkuf65moitkgjevagpbrfof7 | |
| ==> [2020-02-28-15:43:17.143089, 15427] Creating stage lock resource-xmlts-d2x6qqpzdkuf65moitkgjevagpbrfof7 | |
| ==> [2020-02-28-15:43:17.143525, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.143607, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.143664, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.143648] | |
| ==> [2020-02-28-15:43:17.150378, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.150470, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.150451] | |
| ==> [2020-02-28-15:43:17.176305, 15427] Flagging libxml2 as installed | |
| ==> [2020-02-28-15:43:17.176365, 15427] Removing libxml2 from mpich's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.176408, 15427] mpich: Removed libxml2 from uninstalled deps list: set(['libpciaccess', 'findutils']) | |
| ==> [2020-02-28-15:43:17.176530, 15427] Downgrading to a read lock on libxml2 with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.176570, 15427] WRITE LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[1105620656055997487:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.176608, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[1105620656055997487:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.176639, 15427] read locking [1105620656055997487:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.176688, 15427] READ LOCK (libxml2): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[1105620656055997487:1] [Downgraded at 15:43:17.176673] | |
| ==> [2020-02-28-15:43:17.176719, 15427] Flagging libxml2 as installed | |
| ==> [2020-02-28-15:43:17.176746, 15427] Removing libxml2 from mpich's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/libxml2-2.9.9-d2x6qqpzdkuf65moitkgjevagpbrfof7 | |
| ==> [2020-02-28-15:43:17.176869, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.176938, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.177005, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.176990] | |
| ==> [2020-02-28-15:43:17.184009, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.184098, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.184080] | |
| ==> [2020-02-28-15:43:17.184580, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3930063119596288559:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.184665, 15427] read locking [3930063119596288559:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.184722, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3930063119596288559:1] [Acquired at 15:43:17.184706] | |
| ==> [2020-02-28-15:43:17.184758, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3930063119596288559:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.184805, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[3930063119596288559:1] [Released at 15:43:17.184792] | |
| ==> [2020-02-28-15:43:17.184856, 15427] Acquiring a write lock on readline with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.185262, 15427] WRITE LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3930063119596288559:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.185345, 15427] write locking [3930063119596288559:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.185403, 15427] WRITE LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3930063119596288559:1] [Acquired at 15:43:17.185386] | |
| ==> [2020-02-28-15:43:17.185464, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.185535, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.185583, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.185569] | |
| ==> [2020-02-28-15:43:17.191916, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.192005, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.191987] | |
| ==> [2020-02-28-15:43:17.192050, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.192118, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.192185, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.192169] | |
| ==> [2020-02-28-15:43:17.198403, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.198492, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.198474] | |
| ==> [2020-02-28-15:43:17.213593, 15427] Creating stage lock spack-stage-readline-8.0-nukmok3yzt2f6tzef2jm47hphbbmfls4 | |
| ==> [2020-02-28-15:43:17.214298, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.214402, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.214460, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.214444] | |
| ==> [2020-02-28-15:43:17.221138, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.221241, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.221221] | |
| ==> [2020-02-28-15:43:17.234648, 15427] Flagging readline as installed | |
| ==> [2020-02-28-15:43:17.234712, 15427] Removing readline from gdbm's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.234755, 15427] gdbm: Removed readline from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.234852, 15427] Downgrading to a read lock on readline with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.234892, 15427] WRITE LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3930063119596288559:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.234930, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3930063119596288559:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.234961, 15427] read locking [3930063119596288559:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.235011, 15427] READ LOCK (readline): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[3930063119596288559:1] [Downgraded at 15:43:17.234996] | |
| ==> [2020-02-28-15:43:17.235042, 15427] Flagging readline as installed | |
| ==> [2020-02-28-15:43:17.235069, 15427] Removing readline from gdbm's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/readline-8.0-nukmok3yzt2f6tzef2jm47hphbbmfls4 | |
| ==> [2020-02-28-15:43:17.235206, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.235284, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.235335, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.235320] | |
| ==> [2020-02-28-15:43:17.241722, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.241812, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.241794] | |
| ==> [2020-02-28-15:43:17.242325, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[8701080332429443741:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.242688, 15427] read locking [8701080332429443741:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.242752, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[8701080332429443741:1] [Acquired at 15:43:17.242734] | |
| ==> [2020-02-28-15:43:17.242787, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[8701080332429443741:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.242835, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[8701080332429443741:1] [Released at 15:43:17.242822] | |
| ==> [2020-02-28-15:43:17.242889, 15427] Acquiring a write lock on libtool with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.243310, 15427] WRITE LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[8701080332429443741:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.243396, 15427] write locking [8701080332429443741:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.243454, 15427] WRITE LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[8701080332429443741:1] [Acquired at 15:43:17.243437] | |
| ==> [2020-02-28-15:43:17.243526, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.243585, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.243632, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.243618] | |
| ==> [2020-02-28-15:43:17.250443, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.250536, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.250517] | |
| ==> [2020-02-28-15:43:17.250583, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.250653, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.250716, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.250701] | |
| ==> [2020-02-28-15:43:17.256954, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.257042, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.257023] | |
| ==> [2020-02-28-15:43:17.265785, 15427] Creating stage lock spack-stage-libtool-2.4.6-6gaoj3ergcctxf3g7d6rka3patrifrod | |
| ==> [2020-02-28-15:43:17.266220, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.266306, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.266364, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.266348] | |
| ==> [2020-02-28-15:43:17.273906, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.273996, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.273978] | |
| ==> [2020-02-28-15:43:17.281356, 15427] Flagging libtool as installed | |
| ==> [2020-02-28-15:43:17.281417, 15427] Removing libtool from libpciaccess's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.281457, 15427] libpciaccess: Removed libtool from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.281534, 15427] Removing libtool from findutils's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.281571, 15427] findutils: Removed libtool from uninstalled deps list: set(['autoconf', 'texinfo', 'automake']) | |
| ==> [2020-02-28-15:43:17.281673, 15427] Downgrading to a read lock on libtool with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.281712, 15427] WRITE LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[8701080332429443741:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.281749, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[8701080332429443741:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.281780, 15427] read locking [8701080332429443741:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.281829, 15427] READ LOCK (libtool): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[8701080332429443741:1] [Downgraded at 15:43:17.281813] | |
| ==> [2020-02-28-15:43:17.281859, 15427] Flagging libtool as installed | |
| ==> [2020-02-28-15:43:17.281886, 15427] Removing libtool from libpciaccess's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.281949, 15427] Removing libtool from findutils's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/libtool-2.4.6-6gaoj3ergcctxf3g7d6rka3patrifrod | |
| ==> [2020-02-28-15:43:17.282072, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.282140, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.282212, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.282195] | |
| ==> [2020-02-28-15:43:17.302909, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.303012, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.302993] | |
| ==> [2020-02-28-15:43:17.303550, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2407439212115139591:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.303654, 15427] read locking [2407439212115139591:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.303712, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2407439212115139591:1] [Acquired at 15:43:17.303696] | |
| ==> [2020-02-28-15:43:17.303747, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2407439212115139591:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.303794, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2407439212115139591:1] [Released at 15:43:17.303781] | |
| ==> [2020-02-28-15:43:17.303847, 15427] Acquiring a write lock on gdbm with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.304229, 15427] WRITE LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2407439212115139591:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.304311, 15427] write locking [2407439212115139591:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.304366, 15427] WRITE LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2407439212115139591:1] [Acquired at 15:43:17.304350] | |
| ==> [2020-02-28-15:43:17.304426, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.304485, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.304533, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.304519] | |
| ==> [2020-02-28-15:43:17.310951, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.311052, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.311034] | |
| ==> [2020-02-28-15:43:17.311099, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.311189, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.311262, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.311246] | |
| ==> [2020-02-28-15:43:17.317602, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.317693, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.317674] | |
| ==> [2020-02-28-15:43:17.326780, 15427] Creating stage lock spack-stage-gdbm-1.18.1-ili6e2va6a4a7a37uxvjqnqztftpkukf | |
| ==> [2020-02-28-15:43:17.327486, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.327572, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.327630, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.327613] | |
| ==> [2020-02-28-15:43:17.334306, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.334396, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.334377] | |
| ==> [2020-02-28-15:43:17.353731, 15427] Flagging gdbm as installed | |
| ==> [2020-02-28-15:43:17.353792, 15427] Removing gdbm from perl's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.353833, 15427] perl: Removed gdbm from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.353939, 15427] Downgrading to a read lock on gdbm with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.353979, 15427] WRITE LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2407439212115139591:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.354016, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2407439212115139591:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.354047, 15427] read locking [2407439212115139591:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.354096, 15427] READ LOCK (gdbm): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2407439212115139591:1] [Downgraded at 15:43:17.354081] | |
| ==> [2020-02-28-15:43:17.354126, 15427] Flagging gdbm as installed | |
| ==> [2020-02-28-15:43:17.354175, 15427] Removing gdbm from perl's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/gdbm-1.18.1-ili6e2va6a4a7a37uxvjqnqztftpkukf | |
| ==> [2020-02-28-15:43:17.354322, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.354394, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.354444, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.354429] | |
| ==> [2020-02-28-15:43:17.360744, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.360833, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.360815] | |
| ==> [2020-02-28-15:43:17.361476, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2595424403544884717:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.361596, 15427] read locking [2595424403544884717:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.361671, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2595424403544884717:1] [Acquired at 15:43:17.361653] | |
| ==> [2020-02-28-15:43:17.361708, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2595424403544884717:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.361757, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2595424403544884717:1] [Released at 15:43:17.361743] | |
| ==> [2020-02-28-15:43:17.361811, 15427] Acquiring a write lock on libpciaccess with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.362247, 15427] WRITE LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2595424403544884717:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.362329, 15427] write locking [2595424403544884717:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.362386, 15427] WRITE LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2595424403544884717:1] [Acquired at 15:43:17.362369] | |
| ==> [2020-02-28-15:43:17.362456, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.362515, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.362562, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.362548] | |
| ==> [2020-02-28-15:43:17.368932, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.369019, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.369001] | |
| ==> [2020-02-28-15:43:17.369065, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.369133, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.369218, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.369184] | |
| ==> [2020-02-28-15:43:17.376259, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.376350, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.376332] | |
| ==> [2020-02-28-15:43:17.384526, 15427] Creating stage lock spack-stage-libpciaccess-0.13.5-jaezs7g5lcf5whkstrhy6lifyfgekux7 | |
| ==> [2020-02-28-15:43:17.385256, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.385348, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.385409, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.385392] | |
| ==> [2020-02-28-15:43:17.392077, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.392188, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.392168] | |
| ==> [2020-02-28-15:43:17.399040, 15427] Flagging libpciaccess as installed | |
| ==> [2020-02-28-15:43:17.399101, 15427] Removing libpciaccess from mpich's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.399142, 15427] mpich: Removed libpciaccess from uninstalled deps list: set(['findutils']) | |
| ==> [2020-02-28-15:43:17.399278, 15427] Downgrading to a read lock on libpciaccess with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.399319, 15427] WRITE LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2595424403544884717:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.399356, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2595424403544884717:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.399387, 15427] read locking [2595424403544884717:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.399438, 15427] READ LOCK (libpciaccess): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2595424403544884717:1] [Downgraded at 15:43:17.399422] | |
| ==> [2020-02-28-15:43:17.399468, 15427] Flagging libpciaccess as installed | |
| ==> [2020-02-28-15:43:17.399495, 15427] Removing libpciaccess from mpich's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/libpciaccess-0.13.5-jaezs7g5lcf5whkstrhy6lifyfgekux7 | |
| ==> [2020-02-28-15:43:17.399620, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.399690, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.399739, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.399725] | |
| ==> [2020-02-28-15:43:17.406032, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.406121, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.406103] | |
| ==> [2020-02-28-15:43:17.406689, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7581992337637040499:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.406782, 15427] read locking [7581992337637040499:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.406842, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7581992337637040499:1] [Acquired at 15:43:17.406825] | |
| ==> [2020-02-28-15:43:17.406877, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7581992337637040499:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.406925, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7581992337637040499:1] [Released at 15:43:17.406911] | |
| ==> [2020-02-28-15:43:17.406975, 15427] Acquiring a write lock on perl with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.407370, 15427] WRITE LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[7581992337637040499:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.407454, 15427] write locking [7581992337637040499:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.407511, 15427] WRITE LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[7581992337637040499:1] [Acquired at 15:43:17.407494] | |
| ==> [2020-02-28-15:43:17.407570, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.407630, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.407677, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.407663] | |
| ==> [2020-02-28-15:43:17.414060, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.414169, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.414134] | |
| ==> [2020-02-28-15:43:17.414239, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.414310, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.414363, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.414347] | |
| ==> [2020-02-28-15:43:17.420601, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.420706, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.420688] | |
| ==> [2020-02-28-15:43:17.428888, 15427] Creating stage lock spack-stage-perl-5.30.1-2jyuxocnfxbon6pcsz2afu5hvyemdn52 | |
| ==> [2020-02-28-15:43:17.429601, 15427] Creating stage lock resource-cpanm-2jyuxocnfxbon6pcsz2afu5hvyemdn52 | |
| ==> [2020-02-28-15:43:17.429983, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.430065, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.430123, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.430106] | |
| ==> [2020-02-28-15:43:17.436793, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.436884, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.436865] | |
| ==> [2020-02-28-15:43:17.462858, 15427] Flagging perl as installed | |
| ==> [2020-02-28-15:43:17.462922, 15427] Removing perl from autoconf's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.462964, 15427] autoconf: Removed perl from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.463040, 15427] Removing perl from texinfo's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.463076, 15427] texinfo: Removed perl from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.463130, 15427] Removing perl from openssl's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.463187, 15427] openssl: Removed perl from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.463267, 15427] Removing perl from automake's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.463303, 15427] automake: Removed perl from uninstalled deps list: set(['autoconf']) | |
| ==> [2020-02-28-15:43:17.463397, 15427] Downgrading to a read lock on perl with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.463436, 15427] WRITE LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[7581992337637040499:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.463474, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[7581992337637040499:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.463506, 15427] read locking [7581992337637040499:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.463567, 15427] READ LOCK (perl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[7581992337637040499:1] [Downgraded at 15:43:17.463552] | |
| ==> [2020-02-28-15:43:17.463597, 15427] Flagging perl as installed | |
| ==> [2020-02-28-15:43:17.463624, 15427] Removing perl from autoconf's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.463686, 15427] Removing perl from texinfo's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.463738, 15427] Removing perl from openssl's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.463792, 15427] Removing perl from automake's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/perl-5.30.1-2jyuxocnfxbon6pcsz2afu5hvyemdn52 | |
| ==> [2020-02-28-15:43:17.463903, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.463972, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.464022, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.464007] | |
| ==> [2020-02-28-15:43:17.471328, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.471423, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.471403] | |
| ==> [2020-02-28-15:43:17.471897, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6411631660638173636:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.471983, 15427] read locking [6411631660638173636:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.472041, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6411631660638173636:1] [Acquired at 15:43:17.472024] | |
| ==> [2020-02-28-15:43:17.472076, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6411631660638173636:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.472124, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6411631660638173636:1] [Released at 15:43:17.472110] | |
| ==> [2020-02-28-15:43:17.472246, 15427] Acquiring a write lock on autoconf with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.472670, 15427] WRITE LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6411631660638173636:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.472752, 15427] write locking [6411631660638173636:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.472810, 15427] WRITE LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6411631660638173636:1] [Acquired at 15:43:17.472794] | |
| ==> [2020-02-28-15:43:17.472870, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.472929, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.472977, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.472963] | |
| ==> [2020-02-28-15:43:17.479202, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.479295, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.479277] | |
| ==> [2020-02-28-15:43:17.479340, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.479408, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.479458, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.479444] | |
| ==> [2020-02-28-15:43:17.485812, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.485905, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.485886] | |
| ==> [2020-02-28-15:43:17.501467, 15427] Creating stage lock spack-stage-autoconf-2.69-wh2wedgv7dzysdtm4rbkxehmk2ckylo3 | |
| ==> [2020-02-28-15:43:17.502185, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.502296, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.502357, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.502340] | |
| ==> [2020-02-28-15:43:17.508924, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.509013, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.508995] | |
| ==> [2020-02-28-15:43:17.554181, 15427] Flagging autoconf as installed | |
| ==> [2020-02-28-15:43:17.554247, 15427] Removing autoconf from findutils's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.554291, 15427] findutils: Removed autoconf from uninstalled deps list: set(['texinfo', 'automake']) | |
| ==> [2020-02-28-15:43:17.554377, 15427] Removing autoconf from automake's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.554413, 15427] automake: Removed autoconf from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.554505, 15427] Downgrading to a read lock on autoconf with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.554543, 15427] WRITE LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6411631660638173636:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.554580, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6411631660638173636:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.554612, 15427] read locking [6411631660638173636:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.554662, 15427] READ LOCK (autoconf): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6411631660638173636:1] [Downgraded at 15:43:17.554647] | |
| ==> [2020-02-28-15:43:17.554693, 15427] Flagging autoconf as installed | |
| ==> [2020-02-28-15:43:17.554721, 15427] Removing autoconf from findutils's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.554791, 15427] Removing autoconf from automake's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/autoconf-2.69-wh2wedgv7dzysdtm4rbkxehmk2ckylo3 | |
| ==> [2020-02-28-15:43:17.554902, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.554970, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.555020, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.555005] | |
| ==> [2020-02-28-15:43:17.561864, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.561955, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.561937] | |
| ==> [2020-02-28-15:43:17.562492, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5399659524313282114:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.562869, 15427] read locking [5399659524313282114:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.562932, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5399659524313282114:1] [Acquired at 15:43:17.562914] | |
| ==> [2020-02-28-15:43:17.562969, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5399659524313282114:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.563018, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5399659524313282114:1] [Released at 15:43:17.563004] | |
| ==> [2020-02-28-15:43:17.563071, 15427] Acquiring a write lock on texinfo with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.563468, 15427] WRITE LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5399659524313282114:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.563550, 15427] write locking [5399659524313282114:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.563607, 15427] WRITE LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5399659524313282114:1] [Acquired at 15:43:17.563591] | |
| ==> [2020-02-28-15:43:17.563686, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.563747, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.563797, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.563783] | |
| ==> [2020-02-28-15:43:17.570387, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.570479, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.570460] | |
| ==> [2020-02-28-15:43:17.570526, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.570596, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.570660, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.570633] | |
| ==> [2020-02-28-15:43:17.576987, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.577079, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.577060] | |
| ==> [2020-02-28-15:43:17.585864, 15427] Creating stage lock spack-stage-texinfo-6.5-sxpog5i5p3wij6cu2gg7o3g2xjhpb4is | |
| ==> [2020-02-28-15:43:17.586300, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.586383, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.586441, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.586424] | |
| ==> [2020-02-28-15:43:17.592773, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.592862, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.592844] | |
| ==> [2020-02-28-15:43:17.625899, 15427] Flagging texinfo as installed | |
| ==> [2020-02-28-15:43:17.625960, 15427] Removing texinfo from findutils's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.626003, 15427] findutils: Removed texinfo from uninstalled deps list: set(['automake']) | |
| ==> [2020-02-28-15:43:17.626115, 15427] Downgrading to a read lock on texinfo with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.626175, 15427] WRITE LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5399659524313282114:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.626238, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5399659524313282114:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.626271, 15427] read locking [5399659524313282114:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.626323, 15427] READ LOCK (texinfo): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5399659524313282114:1] [Downgraded at 15:43:17.626307] | |
| ==> [2020-02-28-15:43:17.626355, 15427] Flagging texinfo as installed | |
| ==> [2020-02-28-15:43:17.626383, 15427] Removing texinfo from findutils's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/texinfo-6.5-sxpog5i5p3wij6cu2gg7o3g2xjhpb4is | |
| ==> [2020-02-28-15:43:17.626513, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.626596, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.626645, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.626630] | |
| ==> [2020-02-28-15:43:17.633039, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.633129, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.633111] | |
| ==> [2020-02-28-15:43:17.633615, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6676204559265636302:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.633701, 15427] read locking [6676204559265636302:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.633759, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6676204559265636302:1] [Acquired at 15:43:17.633742] | |
| ==> [2020-02-28-15:43:17.633794, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6676204559265636302:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.633841, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[6676204559265636302:1] [Released at 15:43:17.633828] | |
| ==> [2020-02-28-15:43:17.633892, 15427] Acquiring a write lock on openssl with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.634283, 15427] WRITE LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6676204559265636302:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.634366, 15427] write locking [6676204559265636302:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.634423, 15427] WRITE LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6676204559265636302:1] [Acquired at 15:43:17.634407] | |
| ==> [2020-02-28-15:43:17.634483, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.634542, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.634589, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.634575] | |
| ==> [2020-02-28-15:43:17.641717, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.641806, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.641788] | |
| ==> [2020-02-28-15:43:17.641852, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.641920, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.641969, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.641955] | |
| ==> [2020-02-28-15:43:17.648147, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.648275, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.648255] | |
| ==> [2020-02-28-15:43:17.657188, 15427] Creating stage lock spack-stage-openssl-1.1.1d-xfguswlfxy7zybczntrzxnzxsjaafif6 | |
| ==> [2020-02-28-15:43:17.657859, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.657944, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.658002, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.657985] | |
| ==> [2020-02-28-15:43:17.664614, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.664703, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.664684] | |
| ==> [2020-02-28-15:43:17.678291, 15427] Flagging openssl as installed | |
| ==> [2020-02-28-15:43:17.678352, 15427] Removing openssl from cmake's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.678393, 15427] cmake: Removed openssl from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.678494, 15427] Downgrading to a read lock on openssl with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.678535, 15427] WRITE LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6676204559265636302:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.678573, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6676204559265636302:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.678604, 15427] read locking [6676204559265636302:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.678653, 15427] READ LOCK (openssl): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[6676204559265636302:1] [Downgraded at 15:43:17.678638] | |
| ==> [2020-02-28-15:43:17.678684, 15427] Flagging openssl as installed | |
| ==> [2020-02-28-15:43:17.678710, 15427] Removing openssl from cmake's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/openssl-1.1.1d-xfguswlfxy7zybczntrzxnzxsjaafif6 | |
| ==> [2020-02-28-15:43:17.678824, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.678891, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.678940, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.678926] | |
| ==> [2020-02-28-15:43:17.685207, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.685297, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.685278] | |
| ==> [2020-02-28-15:43:17.685763, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4990548866346048231:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.685846, 15427] read locking [4990548866346048231:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.685903, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4990548866346048231:1] [Acquired at 15:43:17.685887] | |
| ==> [2020-02-28-15:43:17.685939, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4990548866346048231:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.685986, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[4990548866346048231:1] [Released at 15:43:17.685973] | |
| ==> [2020-02-28-15:43:17.686037, 15427] Acquiring a write lock on automake with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.686426, 15427] WRITE LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4990548866346048231:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.686508, 15427] write locking [4990548866346048231:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.686565, 15427] WRITE LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4990548866346048231:1] [Acquired at 15:43:17.686548] | |
| ==> [2020-02-28-15:43:17.686625, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.686684, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.686732, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.686717] | |
| ==> [2020-02-28-15:43:17.692932, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.693021, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.693003] | |
| ==> [2020-02-28-15:43:17.693067, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.693134, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.693223, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.693206] | |
| ==> [2020-02-28-15:43:17.699788, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.699883, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.699864] | |
| ==> [2020-02-28-15:43:17.715121, 15427] Creating stage lock spack-stage-automake-1.16.1-rkb7xalzsg244tppdjuehaxgexj4upg2 | |
| ==> [2020-02-28-15:43:17.715821, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.715909, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.715968, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.715951] | |
| ==> [2020-02-28-15:43:17.722642, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.722733, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.722714] | |
| ==> [2020-02-28-15:43:17.755572, 15427] Flagging automake as installed | |
| ==> [2020-02-28-15:43:17.755636, 15427] Removing automake from findutils's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.755677, 15427] findutils: Removed automake from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.755791, 15427] Downgrading to a read lock on automake with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.755831, 15427] WRITE LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4990548866346048231:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.755868, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4990548866346048231:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.755899, 15427] read locking [4990548866346048231:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.755949, 15427] READ LOCK (automake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[4990548866346048231:1] [Downgraded at 15:43:17.755934] | |
| ==> [2020-02-28-15:43:17.755981, 15427] Flagging automake as installed | |
| ==> [2020-02-28-15:43:17.756007, 15427] Removing automake from findutils's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/automake-1.16.1-rkb7xalzsg244tppdjuehaxgexj4upg2 | |
| ==> [2020-02-28-15:43:17.756133, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.756355, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.756469, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.756443] | |
| ==> [2020-02-28-15:43:17.762838, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.762929, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.762911] | |
| ==> [2020-02-28-15:43:17.763441, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[421342217498973626:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.763828, 15427] read locking [421342217498973626:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.763893, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[421342217498973626:1] [Acquired at 15:43:17.763875] | |
| ==> [2020-02-28-15:43:17.763931, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[421342217498973626:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.763981, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[421342217498973626:1] [Released at 15:43:17.763967] | |
| ==> [2020-02-28-15:43:17.764047, 15427] Acquiring a write lock on cmake with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.764507, 15427] WRITE LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[421342217498973626:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.764613, 15427] write locking [421342217498973626:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.764672, 15427] WRITE LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[421342217498973626:1] [Acquired at 15:43:17.764656] | |
| ==> [2020-02-28-15:43:17.764735, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.764795, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.764844, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.764830] | |
| ==> [2020-02-28-15:43:17.771489, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.771582, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.771563] | |
| ==> [2020-02-28-15:43:17.771628, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.771697, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.771748, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.771733] | |
| ==> [2020-02-28-15:43:17.778057, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.778147, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.778128] | |
| ==> [2020-02-28-15:43:17.785203, 15427] Creating stage lock spack-stage-cmake-3.16.2-boy5cb3fzwvxkxdsum4g4ldyhcqqq2wr | |
| ==> [2020-02-28-15:43:17.785632, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.785717, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.785775, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.785758] | |
| ==> [2020-02-28-15:43:17.792169, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.792261, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.792243] | |
| ==> [2020-02-28-15:43:17.819887, 15427] Flagging cmake as installed | |
| ==> [2020-02-28-15:43:17.819953, 15427] Removing cmake from kallisto's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.819997, 15427] kallisto: Removed cmake from uninstalled deps list: set(['mpich', 'hdf5']) | |
| ==> [2020-02-28-15:43:17.820104, 15427] Downgrading to a read lock on cmake with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.820145, 15427] WRITE LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[421342217498973626:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.820226, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[421342217498973626:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.820399, 15427] read locking [421342217498973626:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.820489, 15427] READ LOCK (cmake): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[421342217498973626:1] [Downgraded at 15:43:17.820466] | |
| ==> [2020-02-28-15:43:17.820529, 15427] Flagging cmake as installed | |
| ==> [2020-02-28-15:43:17.820561, 15427] Removing cmake from kallisto's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/cmake-3.16.2-boy5cb3fzwvxkxdsum4g4ldyhcqqq2wr | |
| ==> [2020-02-28-15:43:17.820722, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.820799, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.820850, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.820835] | |
| ==> [2020-02-28-15:43:17.827118, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.827223, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.827203] | |
| ==> [2020-02-28-15:43:17.827627, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5936111944215486362:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.827710, 15427] read locking [5936111944215486362:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.827767, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5936111944215486362:1] [Acquired at 15:43:17.827750] | |
| ==> [2020-02-28-15:43:17.827803, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5936111944215486362:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.827851, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[5936111944215486362:1] [Released at 15:43:17.827837] | |
| ==> [2020-02-28-15:43:17.827903, 15427] Acquiring a write lock on findutils with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.828341, 15427] WRITE LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5936111944215486362:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.828438, 15427] write locking [5936111944215486362:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.828499, 15427] WRITE LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5936111944215486362:1] [Acquired at 15:43:17.828481] | |
| ==> [2020-02-28-15:43:17.828562, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.828623, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.828685, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.828670] | |
| ==> [2020-02-28-15:43:17.835109, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.835223, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.835196] | |
| ==> [2020-02-28-15:43:17.835269, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.835339, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.835390, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.835375] | |
| ==> [2020-02-28-15:43:17.841686, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.841774, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.841756] | |
| ==> [2020-02-28-15:43:17.851479, 15427] Creating stage lock spack-stage-findutils-4.6.0-utbjzoml2w7tif24sacc5hrn3a7bth2f | |
| ==> [2020-02-28-15:43:17.852170, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.852281, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.852341, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.852324] | |
| ==> [2020-02-28-15:43:17.858891, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.858980, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.858961] | |
| ==> [2020-02-28-15:43:17.866907, 15427] Flagging findutils as installed | |
| ==> [2020-02-28-15:43:17.866969, 15427] Removing findutils from mpich's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.867010, 15427] mpich: Removed findutils from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.867121, 15427] Downgrading to a read lock on findutils with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.867177, 15427] WRITE LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5936111944215486362:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.867225, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5936111944215486362:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.867258, 15427] read locking [5936111944215486362:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.867309, 15427] READ LOCK (findutils): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[5936111944215486362:1] [Downgraded at 15:43:17.867294] | |
| ==> [2020-02-28-15:43:17.867341, 15427] Flagging findutils as installed | |
| ==> [2020-02-28-15:43:17.867368, 15427] Removing findutils from mpich's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/findutils-4.6.0-utbjzoml2w7tif24sacc5hrn3a7bth2f | |
| ==> [2020-02-28-15:43:17.867496, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.867564, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.867614, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.867599] | |
| ==> [2020-02-28-15:43:17.874018, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.874108, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.874089] | |
| ==> [2020-02-28-15:43:17.874613, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[583098902804284785:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.874975, 15427] read locking [583098902804284785:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.875037, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[583098902804284785:1] [Acquired at 15:43:17.875020] | |
| ==> [2020-02-28-15:43:17.875073, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[583098902804284785:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.875121, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[583098902804284785:1] [Released at 15:43:17.875107] | |
| ==> [2020-02-28-15:43:17.875191, 15427] Acquiring a write lock on mpich with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.875572, 15427] WRITE LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[583098902804284785:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.875650, 15427] write locking [583098902804284785:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.875706, 15427] WRITE LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[583098902804284785:1] [Acquired at 15:43:17.875690] | |
| ==> [2020-02-28-15:43:17.875764, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.875823, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.875871, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.875857] | |
| ==> [2020-02-28-15:43:17.882538, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.882627, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.882609] | |
| ==> [2020-02-28-15:43:17.882673, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.882742, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.882793, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.882778] | |
| ==> [2020-02-28-15:43:17.890171, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.890328, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.890305] | |
| ==> [2020-02-28-15:43:17.898164, 15427] Creating stage lock spack-stage-mpich-3.3.2-caxsvonveofogph6egb36ivlekau3dp3 | |
| ==> [2020-02-28-15:43:17.898577, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.898660, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.898716, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.898700] | |
| ==> [2020-02-28-15:43:17.905149, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.905262, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.905243] | |
| ==> [2020-02-28-15:43:17.944884, 15427] Flagging mpich as installed | |
| ==> [2020-02-28-15:43:17.944946, 15427] Removing mpich from kallisto's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.944988, 15427] kallisto: Removed mpich from uninstalled deps list: set(['hdf5']) | |
| ==> [2020-02-28-15:43:17.945064, 15427] Removing mpich from hdf5's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.945101, 15427] hdf5: Removed mpich from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:17.945228, 15427] Downgrading to a read lock on mpich with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.945270, 15427] WRITE LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[583098902804284785:1] [Downgrading] | |
| ==> [2020-02-28-15:43:17.945308, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[583098902804284785:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.945341, 15427] read locking [583098902804284785:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.945392, 15427] READ LOCK (mpich): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[583098902804284785:1] [Downgraded at 15:43:17.945376] | |
| ==> [2020-02-28-15:43:17.945423, 15427] Flagging mpich as installed | |
| ==> [2020-02-28-15:43:17.945451, 15427] Removing mpich from kallisto's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:17.945516, 15427] Removing mpich from hdf5's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/mpich-3.3.2-caxsvonveofogph6egb36ivlekau3dp3 | |
| ==> [2020-02-28-15:43:17.945639, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.945708, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.945758, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.945743] | |
| ==> [2020-02-28-15:43:17.952137, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.952242, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.952223] | |
| ==> [2020-02-28-15:43:17.952711, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2210963506724435862:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.952794, 15427] read locking [2210963506724435862:1]: timeout None sec | |
| ==> [2020-02-28-15:43:17.952851, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2210963506724435862:1] [Acquired at 15:43:17.952835] | |
| ==> [2020-02-28-15:43:17.952886, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2210963506724435862:1] [Releasing] | |
| ==> [2020-02-28-15:43:17.952932, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[2210963506724435862:1] [Released at 15:43:17.952919] | |
| ==> [2020-02-28-15:43:17.952982, 15427] Acquiring a write lock on hdf5 with timeout 1e-09 | |
| ==> [2020-02-28-15:43:17.953393, 15427] WRITE LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2210963506724435862:1] [Acquiring] | |
| ==> [2020-02-28-15:43:17.953477, 15427] write locking [2210963506724435862:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:17.953545, 15427] WRITE LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2210963506724435862:1] [Acquired at 15:43:17.953529] | |
| ==> [2020-02-28-15:43:17.953605, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.953664, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.953713, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.953698] | |
| ==> [2020-02-28-15:43:17.960089, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.960216, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.960177] | |
| ==> [2020-02-28-15:43:17.960265, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.960347, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.960401, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.960385] | |
| ==> [2020-02-28-15:43:17.966634, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.966732, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.966714] | |
| ==> [2020-02-28-15:43:17.967434, 15427] Creating stage lock spack-stage-hdf5-1.10.6-hvo5omf3klxs2lhmbaufjuyzalomtvoa | |
| ==> [2020-02-28-15:43:17.967857, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:17.967939, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:17.967996, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:17.967979] | |
| ==> [2020-02-28-15:43:17.974897, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:17.974987, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:17.974968] | |
| ==> [2020-02-28-15:43:18.022187, 15427] Flagging hdf5 as installed | |
| ==> [2020-02-28-15:43:18.022252, 15427] Removing hdf5 from kallisto's uninstalled dependencies. | |
| ==> [2020-02-28-15:43:18.022294, 15427] kallisto: Removed hdf5 from uninstalled deps list: set([]) | |
| ==> [2020-02-28-15:43:18.022399, 15427] Downgrading to a read lock on hdf5 with timeout 1e-09 | |
| ==> [2020-02-28-15:43:18.022439, 15427] WRITE LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2210963506724435862:1] [Downgrading] | |
| ==> [2020-02-28-15:43:18.022476, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2210963506724435862:1] [Acquiring] | |
| ==> [2020-02-28-15:43:18.022508, 15427] read locking [2210963506724435862:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:18.022557, 15427] READ LOCK (hdf5): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[2210963506724435862:1] [Downgraded at 15:43:18.022542] | |
| ==> [2020-02-28-15:43:18.022587, 15427] Flagging hdf5 as installed | |
| ==> [2020-02-28-15:43:18.022614, 15427] Removing hdf5 from kallisto's uninstalled dependencies. | |
| [+] /home/ghartzell/tmp/spack-update-kallisto/opt/spack/linux-centos7-skylake_avx512/gcc-8.2.0/hdf5-1.10.6-hvo5omf3klxs2lhmbaufjuyzalomtvoa | |
| ==> [2020-02-28-15:43:18.023072, 15427] READ LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Acquiring] | |
| ==> [2020-02-28-15:43:18.023180, 15427] read locking [7518767720161644430:1]: timeout None sec | |
| ==> [2020-02-28-15:43:18.023263, 15427] READ LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Acquired at 15:43:18.023245] | |
| ==> [2020-02-28-15:43:18.023300, 15427] READ LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Releasing] | |
| ==> [2020-02-28-15:43:18.023348, 15427] READ LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Released at 15:43:18.023334] | |
| ==> [2020-02-28-15:43:18.023401, 15427] Acquiring a write lock on kallisto with timeout 1e-09 | |
| ==> [2020-02-28-15:43:18.023786, 15427] WRITE LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[7518767720161644430:1] [Acquiring] | |
| ==> [2020-02-28-15:43:18.023865, 15427] write locking [7518767720161644430:1]: timeout 1e-09 sec | |
| ==> [2020-02-28-15:43:18.023920, 15427] WRITE LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_lock[7518767720161644430:1] [Acquired at 15:43:18.023904] | |
| ==> [2020-02-28-15:43:18.023979, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:18.024038, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:18.024086, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:18.024072] | |
| ==> [2020-02-28-15:43:18.030463, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:18.030555, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:18.030536] | |
| ==> [2020-02-28-15:43:18.030605, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:18.030685, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:18.030737, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:18.030722] | |
| ==> [2020-02-28-15:43:18.037067, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:18.037174, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:18.037139] | |
| ==> [2020-02-28-15:43:18.054602, 15427] Creating stage lock spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf | |
| ==> [2020-02-28-15:43:18.055611, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:18.055702, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:18.055761, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:18.055745] | |
| ==> [2020-02-28-15:43:18.062618, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:18.062720, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:18.062701] | |
| ==> [2020-02-28-15:43:18.062947, 15427] 15427: Installing kallisto | |
| ==> [2020-02-28-15:43:18.062986, 15427] Searching for binary cache of kallisto | |
| ==> [2020-02-28-15:43:18.063174, 15427] No Spack mirrors are currently configured | |
| ==> [2020-02-28-15:43:18.066271, 15427] No binary for kallisto found: installing from source | |
| ==> [2020-02-28-15:43:18.066382, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:18.066456, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:18.066511, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:18.066495] | |
| ==> [2020-02-28-15:43:18.072744, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:18.072831, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:18.072813] | |
| ==> [2020-02-28-15:43:18.140623, 15431] [TOOLCHAIN] MATCH Gcc | |
| ==> [2020-02-28-15:43:18.157273, 15431] '/home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/bin/gcc' '-v' '/tmp/spack-implicit-link-infoOBzEzE/main.c' '-o' '/tmp/spack-implicit-link-infoOBzEzE/output' | |
| ==> [2020-02-28-15:43:18.192593, 15431] parsing implicit link info | |
| ==> [2020-02-28-15:43:18.192931, 15431] linker line: /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/libexec/gcc/x86_64-pc-linux-gnu/8.2.0/collect2 -plugin /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/libexec/gcc/x86_64-pc-linux-gnu/8.2.0/liblto_plugin.so -plugin-opt=/home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/libexec/gcc/x86_64-pc-linux-gnu/8.2.0/lto-wrapper -plugin-opt=-fresolution=/tmp/cccDUNss.res -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lgcc_s -rpath /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib:/home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib64 --eh-frame-hdr -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o /tmp/spack-implicit-link-infoOBzEzE/output /lib/../lib64/crt1.o /lib/../lib64/crti.o /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0/crtbegin.o -L/home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0 -L/home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0/../../.. /tmp/cck66BoK.o -lgcc --as-needed -lgcc_s --no-as-needed -lc -lgcc --as-needed -lgcc_s --no-as-needed /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0/crtend.o /lib/../lib64/crtn.o | |
| ==> [2020-02-28-15:43:18.193049, 15431] linkdir: /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0 | |
| ==> [2020-02-28-15:43:18.193087, 15431] linkdir: /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0/../../../../lib64 | |
| ==> [2020-02-28-15:43:18.193120, 15431] linkdir: /lib/../lib64 | |
| ==> [2020-02-28-15:43:18.193186, 15431] linkdir: /usr/lib/../lib64 | |
| ==> [2020-02-28-15:43:18.193236, 15431] linkdir: /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0/../../.. | |
| ==> [2020-02-28-15:43:18.193281, 15431] found raw link dirs: /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0, /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0/../../../../lib64, /lib/../lib64, /usr/lib/../lib64, /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0/../../.. | |
| ==> [2020-02-28-15:43:18.193364, 15431] found link dirs: /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib/gcc/x86_64-pc-linux-gnu/8.2.0, /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib64, /lib64, /usr/lib64, /home/ghartzell/spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-8.2.0-uc6sbumioobdbkw4rwfyn2givi4nyvwq/lib | |
| ==> [2020-02-28-15:43:18.316122, 15431] A dependency has updated CPATH, this may lead pkg-config to assume that the package is part of the system includes and omit it when invoked with '--cflags'. | |
| ==> [2020-02-28-15:43:18.326880, 15431] Fetching https://github.com/pachterlab/kallisto/archive/v0.46.2.tar.gz | |
| ==> [2020-02-28-15:43:18.327867, 15431] '/usr/bin/curl' '-C' '-' '-o' '/tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz.part' '-f' '-D' '-' '-L' 'https://github.com/pachterlab/kallisto/archive/v0.46.2.tar.gz' '-#' '--connect-timeout' '10' | |
| ######################################################################## 100.0% | |
| ==> [2020-02-28-15:43:18.811084, 15427] Error: ChecksumError: sha256 checksum failed for /tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz | |
| Expected 49574ca9c714a23437b7dbc4f6979b944243af7da62df3a90181c5999e2785b9 but got c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2 | |
| /home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py:1131, in do_fetch: | |
| 1128 self.stage.fetch(mirror_only) | |
| 1129 self._fetch_time = time.time() - start_time | |
| 1130 | |
| >> 1131 if checksum and self.version in self.versions: | |
| 1132 self.stage.check() | |
| 1133 | |
| 1134 self.stage.cache_local() | |
| Traceback (most recent call last): | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/build_environment.py", line 801, in child_process | |
| return_value = function() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/installer.py", line 984, in build_process | |
| pkg.do_patch() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1167, in do_patch | |
| self.do_stage() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1152, in do_stage | |
| self.do_fetch(mirror_only) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1132, in do_fetch | |
| self.stage.check() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/util/pattern.py", line 68, in getter | |
| getattr(item, self.name)(*args, **kwargs) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/stage.py", line 490, in check | |
| self.fetcher.check() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/fetch_strategy.py", line 73, in wrapper | |
| return fun(self, *args, **kwargs) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/fetch_strategy.py", line 505, in check | |
| "Expected %s but got %s" % (self.digest, checker.sum)) | |
| ChecksumError: sha256 checksum failed for /tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz | |
| Expected 49574ca9c714a23437b7dbc4f6979b944243af7da62df3a90181c5999e2785b9 but got c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2 | |
| ==> [2020-02-28-15:43:18.811544, 15427] Error: Failed to install kallisto due to ChildError: ChecksumError: sha256 checksum failed for /tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz | |
| Expected 49574ca9c714a23437b7dbc4f6979b944243af7da62df3a90181c5999e2785b9 but got c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2 | |
| /home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py:1131, in do_fetch: | |
| 1128 self.stage.fetch(mirror_only) | |
| 1129 self._fetch_time = time.time() - start_time | |
| 1130 | |
| >> 1131 if checksum and self.version in self.versions: | |
| 1132 self.stage.check() | |
| 1133 | |
| 1134 self.stage.cache_local() | |
| Traceback (most recent call last): | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/build_environment.py", line 801, in child_process | |
| return_value = function() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/installer.py", line 984, in build_process | |
| pkg.do_patch() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1167, in do_patch | |
| self.do_stage() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1152, in do_stage | |
| self.do_fetch(mirror_only) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1132, in do_fetch | |
| self.stage.check() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/util/pattern.py", line 68, in getter | |
| getattr(item, self.name)(*args, **kwargs) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/stage.py", line 490, in check | |
| self.fetcher.check() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/fetch_strategy.py", line 73, in wrapper | |
| return fun(self, *args, **kwargs) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/fetch_strategy.py", line 505, in check | |
| "Expected %s but got %s" % (self.digest, checker.sum)) | |
| ChecksumError: sha256 checksum failed for /tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz | |
| Expected 49574ca9c714a23437b7dbc4f6979b944243af7da62df3a90181c5999e2785b9 but got c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2 | |
| ==> [2020-02-28-15:43:18.811686, 15427] Flagging kallisto as failed: ChecksumError: sha256 checksum failed for /tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz | |
| Expected 49574ca9c714a23437b7dbc4f6979b944243af7da62df3a90181c5999e2785b9 but got c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2 | |
| /home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py:1131, in do_fetch: | |
| 1128 self.stage.fetch(mirror_only) | |
| 1129 self._fetch_time = time.time() - start_time | |
| 1130 | |
| >> 1131 if checksum and self.version in self.versions: | |
| 1132 self.stage.check() | |
| 1133 | |
| 1134 self.stage.cache_local() | |
| Traceback (most recent call last): | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/build_environment.py", line 801, in child_process | |
| return_value = function() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/installer.py", line 984, in build_process | |
| pkg.do_patch() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1167, in do_patch | |
| self.do_stage() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1152, in do_stage | |
| self.do_fetch(mirror_only) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1132, in do_fetch | |
| self.stage.check() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/util/pattern.py", line 68, in getter | |
| getattr(item, self.name)(*args, **kwargs) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/stage.py", line 490, in check | |
| self.fetcher.check() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/fetch_strategy.py", line 73, in wrapper | |
| return fun(self, *args, **kwargs) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/fetch_strategy.py", line 505, in check | |
| "Expected %s but got %s" % (self.digest, checker.sum)) | |
| ChecksumError: sha256 checksum failed for /tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz | |
| Expected 49574ca9c714a23437b7dbc4f6979b944243af7da62df3a90181c5999e2785b9 but got c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2 | |
| ==> [2020-02-28-15:43:18.815815, 15427] WRITE LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Acquiring] | |
| ==> [2020-02-28-15:43:18.815949, 15427] write locking [7518767720161644430:1]: timeout None sec | |
| ==> [2020-02-28-15:43:18.816025, 15427] WRITE LOCK (kallisto): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/prefix_failures[7518767720161644430:1] [Acquired at 15:43:18.816005] | |
| ==> [2020-02-28-15:43:18.816132, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquiring] | |
| ==> [2020-02-28-15:43:18.816222, 15427] read locking [0:0]: timeout 3 sec | |
| ==> [2020-02-28-15:43:18.816340, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Acquired at 15:43:18.816318] | |
| ==> [2020-02-28-15:43:18.823533, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Releasing] | |
| ==> [2020-02-28-15:43:18.823638, 15427] READ LOCK (database): /home/ghartzell/tmp/spack-update-kallisto/opt/spack/.spack-db/lock[0:0] [Released at 15:43:18.823619] | |
| ==> [2020-02-28-15:43:18.824177, 15427] ChildError: ChecksumError: sha256 checksum failed for /tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz | |
| Expected 49574ca9c714a23437b7dbc4f6979b944243af7da62df3a90181c5999e2785b9 but got c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2 | |
| /home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py:1131, in do_fetch: | |
| 1128 self.stage.fetch(mirror_only) | |
| 1129 self._fetch_time = time.time() - start_time | |
| 1130 | |
| >> 1131 if checksum and self.version in self.versions: | |
| 1132 self.stage.check() | |
| 1133 | |
| 1134 self.stage.cache_local() | |
| Traceback (most recent call last): | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/build_environment.py", line 801, in child_process | |
| return_value = function() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/installer.py", line 984, in build_process | |
| pkg.do_patch() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1167, in do_patch | |
| self.do_stage() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1152, in do_stage | |
| self.do_fetch(mirror_only) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/package.py", line 1132, in do_fetch | |
| self.stage.check() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/util/pattern.py", line 68, in getter | |
| getattr(item, self.name)(*args, **kwargs) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/stage.py", line 490, in check | |
| self.fetcher.check() | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/fetch_strategy.py", line 73, in wrapper | |
| return fun(self, *args, **kwargs) | |
| File "/home/ghartzell/tmp/spack-update-kallisto/lib/spack/spack/fetch_strategy.py", line 505, in check | |
| "Expected %s but got %s" % (self.digest, checker.sum)) | |
| ChecksumError: sha256 checksum failed for /tmp/ghartzell/spack-stage/spack-stage-kallisto-0.46.2-2cya5t4j2epry6ttce7w2bm5eeoqurjf/v0.46.2.tar.gz | |
| Expected 49574ca9c714a23437b7dbc4f6979b944243af7da62df3a90181c5999e2785b9 but got c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2 | |
| [ghartzell@bifx1n03 spack-update-kallisto]$ |
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