Mercurial > repos > bgruening > bismark
comparison tool_dependencies.xml @ 7:fcadce4d9a06 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/bismark commit b'e6ee273f75fff61d1e419283fa8088528cf59470\n'
| author | bgruening |
|---|---|
| date | Sat, 06 May 2017 13:18:09 -0400 |
| parents | 243e8f9fb75b |
| children |
comparison
equal
deleted
inserted
replaced
| 6:0f8646f22b8d | 7:fcadce4d9a06 |
|---|---|
| 1 <?xml version="1.0"?> | 1 <?xml version="1.0"?> |
| 2 <tool_dependency> | 2 <tool_dependency> |
| 3 <!-- from test tool shed--> | |
| 4 <!--<package name="samtools" version="0.1.19"> | |
| 5 <repository changeset_revision="a0ab0fae27e5" name="package_samtools_0_1_19" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> | |
| 6 </package>--> | |
| 7 <!--from main tool shed--> | |
| 3 <package name="samtools" version="0.1.19"> | 8 <package name="samtools" version="0.1.19"> |
| 4 <repository changeset_revision="923adc89c666" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> | 9 <repository changeset_revision="c9bd782f5342" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> |
| 5 </package> | 10 </package> |
| 6 <set_environment version="1.0"> | |
| 7 <environment_variable action="set_to" name="SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable> | |
| 8 </set_environment> | |
| 9 <package name="bowtie2" version="2.1.0"> | 11 <package name="bowtie2" version="2.1.0"> |
| 12 <repository changeset_revision="017a00c265f1" name="package_bowtie2_2_1_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" /> | |
| 13 </package> | |
| 14 <!--<package name="bowtie2" version="2.1.0"> | |
| 10 <install version="1.0"> | 15 <install version="1.0"> |
| 11 <actions> | 16 <actions> |
| 12 <action type="download_by_url">http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.1.0/bowtie2-2.1.0-source.zip</action> | 17 <action type="download_by_url">http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.1.0/bowtie2-2.1.0-source.zip</action> |
| 13 <action type="shell_command">make</action> | 18 <action type="shell_command">make</action> |
| 14 <action type="move_file"> | 19 <action type="move_file"> |
| 30 </actions> | 35 </actions> |
| 31 </install> | 36 </install> |
| 32 <readme> | 37 <readme> |
| 33 Compiling bowtie2 requires zlib and libpthread to be present on your system. | 38 Compiling bowtie2 requires zlib and libpthread to be present on your system. |
| 34 </readme> | 39 </readme> |
| 35 </package> | 40 </package>--> |
| 36 <package name="bowtie" version="0.12.8"> | |
| 37 <install version="1.0"> | |
| 38 <actions> | |
| 39 <action type="download_by_url">http://downloads.sourceforge.net/project/bowtie-bio/bowtie/0.12.8/bowtie-0.12.8-src.zip</action> | |
| 40 <action type="shell_command">make</action> | |
| 41 <action type="move_file"> | |
| 42 <source>bowtie</source> | |
| 43 <destination>$INSTALL_DIR/bin</destination> | |
| 44 </action> | |
| 45 <action type="move_file"> | |
| 46 <source>bowtie-inspect</source> | |
| 47 <destination>$INSTALL_DIR/bin</destination> | |
| 48 </action> | |
| 49 <action type="move_file"> | |
| 50 <source>bowtie-build</source> | |
| 51 <destination>$INSTALL_DIR/bin</destination> | |
| 52 </action> | |
| 53 <action type="set_environment"> | |
| 54 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> | |
| 55 </action> | |
| 56 </actions> | |
| 57 </install> | |
| 58 <readme> | |
| 59 </readme> | |
| 60 </package> | |
| 61 </tool_dependency> | 41 </tool_dependency> |