gistfile1.txt

Step 8/29 : WORKDIR /usr/share/nginx/html/tools/protein_schematic
 ---> Running in 44c21469489b
Removing intermediate container 44c21469489b
 ---> 3e6f8d68da53
Step 9/29 : RUN npm install generic-filehandle
 ---> Running in 59b40f392d0b
npm notice created a lockfile as package-lock.json. You should commit this file.
+ generic-filehandle@2.1.0
added 5 packages from 5 contributors and audited 5 packages in 0.604s
found 0 vulnerabilities

Removing intermediate container 59b40f392d0b
 ---> 1e9ef69fa272
Step 10/29 : RUN npm install @gmod/tabix
 ---> Running in 9c14965256f1
npm WARN deprecated core-js@2.6.12: core-js@<3.3 is no longer maintained and not recommended for usage due to the number of issues. Because of the V8 engine whims, feature detection in old core-js versions could cause a slowdown up to 100x even if nothing is polyfilled. Please, upgrade your dependencies to the actual version of core-js.

> core-js@2.6.12 postinstall /usr/share/nginx/html/tools/protein_schematic/node_modules/core-js
> node -e "try{require('./postinstall')}catch(e){}"

Thank you for using core-js ( https://github.com/zloirock/core-js ) for polyfilling JavaScript standard library!

The project needs your help! Please consider supporting of core-js on Open Collective or Patreon:
> https://opencollective.com/core-js
> https://www.patreon.com/zloirock

Also, the author of core-js ( https://github.com/zloirock ) is looking for a good job -)

+ @gmod/tabix@1.5.0
added 13 packages from 13 contributors and audited 19 packages in 3.143s
found 0 vulnerabilities

Removing intermediate container 9c14965256f1
 ---> 17b1e46ddf83
Step 11/29 : RUN ./setup.sh -f
 ---> Running in 763cf657077f
Fast build requested.
Gathering system information ...done.
NOTE: Legacy scripts wig-to-json.pl and bam-to-json.pl have been removed from setup. Their functionality has been superseded by add-bam-track.pl and add-bw-track.pl. If you require the old versions, please use JBrowse 1.12.3 or earlier.
Installing node.js dependencies and building with webpack ... failed.  See setup.log file for error messages.
setup cannot continue, aborting.

Fast build requested.


Gathering system information ...
============== System information ====
+ lsb_release -a
No LSB modules are available.
Distributor ID:	Debian
Description:	Debian GNU/Linux 10 (buster)
Release:	10
Codename:	buster
+ uname -a
Linux 04581c9a8403 4.14.203-116.332.amzn1.x86_64 #1 SMP Fri Oct 30 18:56:11 UTC 2020 x86_64 GNU/Linux
+ sw_vers
./setup.sh: line 89: sw_vers: command not found
+ grep MemTotal /proc/meminfo
MemTotal:       32941148 kB
+ echo

+ echo


done.


NOTE: Legacy scripts wig-to-json.pl and bam-to-json.pl have been removed from setup. Their functionality has been superseded by add-bam-track.pl and add-bw-track.pl. If you require the old versions, please use JBrowse 1.12.3 or earlier.


Installing node.js dependencies and building with webpack ...
Node v10.19.0 installed at /usr/bin/node with npm 6.13.4

> yarn@1.22.10 preinstall /usr/share/nginx/html/tools/protein_schematic/node_modules/yarn
> :; (node ./preinstall.js > /dev/null 2>&1 || true)

+ yarn@1.22.10
added 1 package and audited 20 packages in 0.619s
found 0 vulnerabilities

yarn install v1.22.10
warning package-lock.json found. Your project contains lock files generated by tools other than Yarn. It is advised not to mix package managers in order to avoid resolution inconsistencies caused by unsynchronized lock files. To clear this warning, remove package-lock.json.
[1/4] Resolving packages...
trying to use @gmod/tabix
[2/4] Fetching packages...
warning url-loader@1.1.2: Invalid bin field for "url-loader".
info fsevents@1.2.11: The platform "linux" is incompatible with this module.
info "fsevents@1.2.11" is an optional dependency and failed compatibility check. Excluding it from installation.
[3/4] Linking dependencies...
warning " > dojo-webpack-plugin@2.8.13" has unmet peer dependency "webpack-sources@>=1.0.1".
error An unexpected error occurred: "ENOTEMPTY: directory not empty, rmdir '/usr/share/nginx/html/tools/protein_schematic/node_modules/file-uri-to-path/dist/src'".
info If you think this is a bug, please open a bug report with the information provided in "/usr/share/nginx/html/tools/protein_schematic/yarn-error.log".
info Visit https://yarnpkg.com/en/docs/cli/install for documentation about this command.
Fast build requested; skipping installing Perl prerequisites and sample data. Exiting...
Removing intermediate container 763cf657077f
 ---> bef9a90399bb
Step 12/29 : FROM nginx:latest as production
 ---> 35c43ace9216
Step 13/29 : COPY --from=build /usr/share/nginx/html/tools/protein_schematic/node_modules /usr/share/nginx/html/tools/protein_schematic/node_modules
COPY failed: lstat /mnt/data1/docker/overlay2/5b404416f838b7c3a840c814aa89f3c5fb29228c322ff36fcbd5db9587a326b8/merged/usr/share/nginx/html/tools/protein_schematic/node_modules/core-js/core-js-banners: no such file or directory