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[ 99%] Building CXX object ui/CMakeFiles/rb-ui.dir/Users/chris/src/revbayes/src/ui/RbClient.cpp.o
In file included from /Users/chris/src/revbayes/src/ui/RbClient.cpp:1:
In file included from /Users/chris/src/revbayes/projects/cmake/../../src/ui/RbClient.h:8:
In file included from /Users/chris/src/revbayes/projects/cmake/../../src/libs/lineedit/EditorMachineObserver.h:11:
In file included from /Users/chris/src/revbayes/projects/cmake/../../src/libs/lineedit/EditorState.h:8:
/Users/chris/src/revbayes/projects/cmake/../../src/libs/lineedit/lineeditUtils.h:35:20: warning: implicit conversion
      from 'const size_type' (aka 'const unsigned long') to 'int' changes value from 18446744073709551615 to -1
      [-Wconstant-conversion]
        int rPos = std::string::npos, _rPos, tmpInt;
            ~~~~   ^~~~~~~~~~~~~~~~~

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ids = ["148908191", "297793721", "48525513", "507118461"]
search_results = Entrez.read(Entrez.epost("protein", id=','.join(ids)))
webenv = search_results["WebEnv"]
query_key = search_results["QueryKey"] 
print Entrez.read(Entrez.elink(webenv=webenv, 
                         query_key=query_key,
                         dbfrom="protein",
                         db="taxonomy"))

print "-------"

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mkdir bash-fix
cd bash-fix
curl https://opensource.apple.com/tarballs/bash/bash-92.tar.gz --insecure | tar zxf -
cd bash-92/bash-3.2
curl https://ftp.gnu.org/pub/gnu/bash/bash-3.2-patches/bash32-052 --insecure | patch -p0    
cd ..
xcodebuild
sudo cp /bin/bash /bin/bash.old
sudo cp /bin/sh /bin/sh.old
build/Release/bash --version # GNU bash, version 3.2.52(1)-release

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{
 "metadata": {
  "name": "",
  "signature": "sha256:29933bf423b0f63d5ae9b0a7597a52fbd50ec1ac016b537876b45d0a0cf0dacc"
 },
 "nbformat": 3,
 "nbformat_minor": 0,
 "worksheets": [
  {
   "cells": [

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1000     19845  0.2  0.0  66732  3944 pts/26   Ss+  17:12   0:00 /bin/sh -c /home/cfriedline/data7/src/ms/msdir/ms 1100 1 -t 5 -s 1 -F 55 -I 94 4 18 4 4 72 16 14 6 22 16 6 6 4 4 4 10 26 6 12 6 10 12 4 46 6 4 16 4 4 4 4 6 8 6 6 20 34 6 8 12 8 4 4 20 4 6 12 6 8 8 8 4 22 6 12 4 26 4 12 14 16 4 8 4 6 22 4 26 4 34 4 4 8 4 18 8 4 8 10 16 14 4 126 4 6 4 4 14 4 6 14 6 6 4 -ema 0.0 94 X 596.3 269.6 16.9 391.6 1000 406 1000 161.5 996.7 1000 32.1 244.6 449.6 1000 384.3 278.3 265.1 539.2 536.3 43.8 373 453.4 395.2 1000 106.3 135.7 1000 1000 216.1 79.7 187.3 1000 1000 481.3 1000 194.8 280.3 775 1000 510.7 1000 33 225.4 1000 69.7 95.7 46.5 877 43.1 107.9 1000 184.9 1000 459.9 1000 389.1 242.3 251.1 40 592.5 588.5 430.5 56.7 39.9 1000 637.6 283.2 239.1 249.3 399.3 43.9 30.3 322.3 479.6 315.8 93.4 1000 1000 182.5 125 148 527.7 71.6 177.1 54.4 201.5 1000 1000 1000 1000 17.9 73 1000 596.3 X 230.1 28.5 895.6 1000 1000 371 446.6 1000 910.8 49.8 258.6 325 1000 504.4 179.2 1000 254.7 831.2 53.9 880.7 1000 973.9 1000 419.2 349.6 10

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#run this look, manually filling in exclude when it hangs
exclude = set([636, 640, 648, 741])
for x in xrange(len(rc)):
    if not x in exclude:
        print x, rc[x].apply(os.getpid).r

#given the manual exclude from above, redefine dview and lview based on active targets
exclude = set([636, 640, 648, 741])
active = []
for i in xrange(len(rc)):

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layout	date	title	comments	tags
post	2014-04-28 10:21	Recap of my talk on 4/25/14 at CCTL	true	talks, nsf, science, math, evolution

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data = np.zeros((rows, cols), dtype=np.int16)
index = 0
for line in open("ms.txt"):
    print "at %d/%d" % (index, rows)
    if index > 0:
       data[index] = line.split("\t")
    index += 1

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