Mercurial > repos > jeremie > package_pindel_0_2_5
comparison tool_dependencies.xml @ 22:2680041530ec draft
Uploaded
author | jeremie |
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date | Fri, 20 Jun 2014 06:28:21 -0400 |
parents | 7b71d14e0f78 |
children | 302ce0e59304 |
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21:7b71d14e0f78 | 22:2680041530ec |
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1 <?xml version="1.0"?> | 1 <?xml version="1.0"?> |
2 <tool_dependency> | 2 <tool_dependency> |
3 <package name="samtools" version="0.1.18"> | 3 <package name="samtools" version="0.1.18"> |
4 <repository changeset_revision="171cd8bc208d" name="package_samtools_0_1_18" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> | 4 <repository changeset_revision="171cd8bc208d" name="package_samtools_0_1_18" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" prior_installation_required="True" /> |
5 </package> | 5 </package> |
6 <package name="pindel" version="0.2.5"> | 6 <package name="pindel" version="0.2.5"> |
7 <install version="1.0"> | 7 <install version="1.0"> |
8 <actions> | 8 <actions> |
9 <!-- <action type="shell_command">git clone https://github.com/genome/pindel.git pindel</action> --> | 9 <!-- <action type="shell_command">git clone https://github.com/genome/pindel.git pindel</action> --> |
23 <action type="shell_command"> | 23 <action type="shell_command"> |
24 echo "SAMTOOLS= | 24 echo "SAMTOOLS= |
25 THREADS= | 25 THREADS= |
26 COLOUSINGBD15_TIME=60 | 26 COLOUSINGBD15_TIME=60 |
27 COLOWOBD15_TIME=80 | 27 COLOWOBD15_TIME=80 |
28 SIM1CHRVS20305_TIME=60" >> Makefile.local | 28 SIM1CHRVS20305_TIME=60" > Makefile.local |
29 </action> | 29 </action> |
30 <action type="shell_command">make SAMTOOLS=~/samtools THREADS=2</action> | 30 <action type="shell_command">make SAMTOOLS=~/samtools THREADS=2</action> |
31 <!-- <action type="shell_command">./INSTALL ~/samtools</action> --> | 31 <!-- <action type="shell_command">./INSTALL ~/samtools</action> --> |
32 | 32 |
33 | 33 |