| Previous changeset 0:b98d6fffd00b (2015-06-11) Next changeset 2:7a12314c5b64 (2015-11-19) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/art commit 44c7d88ebdbf798890394a7696a4ce0c504faaf7 |
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modified:
art_454.xml art_illumina.xml art_solid.xml macros.xml tool_dependencies.xml |
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| diff -r b98d6fffd00b -r a12ce5668966 art_454.xml --- a/art_454.xml Thu Jun 11 11:51:06 2015 -0400 +++ b/art_454.xml Thu Jun 11 13:50:36 2015 -0400 |
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| @@ -3,6 +3,7 @@ <macros> <import>macros.xml</import> </macros> + <expand macro="requirements"/> <expand macro="stdio" /> <command><![CDATA[ art_454 $t |
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| diff -r b98d6fffd00b -r a12ce5668966 art_illumina.xml --- a/art_illumina.xml Thu Jun 11 11:51:06 2015 -0400 +++ b/art_illumina.xml Thu Jun 11 13:50:36 2015 -0400 |
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| @@ -3,6 +3,7 @@ <macros> <import>macros.xml</import> </macros> + <expand macro="requirements"/> <expand macro="stdio" /> <command><![CDATA[ art_illumina |
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| diff -r b98d6fffd00b -r a12ce5668966 art_solid.xml --- a/art_solid.xml Thu Jun 11 11:51:06 2015 -0400 +++ b/art_solid.xml Thu Jun 11 13:50:36 2015 -0400 |
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| @@ -3,6 +3,7 @@ <macros> <import>macros.xml</import> </macros> + <expand macro="requirements"/> <expand macro="stdio" /> <command><![CDATA[ art_SOLiD |
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| diff -r b98d6fffd00b -r a12ce5668966 macros.xml --- a/macros.xml Thu Jun 11 11:51:06 2015 -0400 +++ b/macros.xml Thu Jun 11 13:50:36 2015 -0400 |
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| @@ -1,5 +1,13 @@ <macros> <token name="@WRAPPER_VERSION@">2014.11.03.0</token> + + <xml name="requirements"> + <requirements> + <requirement type="package" version="2014.11.03">art</requirement> + <yield/> + </requirements> + </xml> + <xml name="stdio"> <stdio> <!-- Anything other than zero is an error --> |
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| diff -r b98d6fffd00b -r a12ce5668966 tool_dependencies.xml --- a/tool_dependencies.xml Thu Jun 11 11:51:06 2015 -0400 +++ b/tool_dependencies.xml Thu Jun 11 13:50:36 2015 -0400 |
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| @@ -1,38 +1,6 @@ <?xml version="1.0"?> <tool_dependency> - <package name="package_gsl_1_16" version="1.16"> - <repository changeset_revision="4391a79f86fa" name="package_gsl_1_16" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> - </package> - <package name="art" version="2014_11_03"> - <install version="1.0"> - <actions> - <action type="download_by_url">http://www.niehs.nih.gov/research/resources/assets/docs/artsrcvanillaicecream031114linuxtgz.tgz</action> - <action type="set_environment_for_install"> - <repository changeset_revision="4391a79f86fa" name="package_gsl_1_16" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu"> - <package name="gsl" version="1.16" /> - </repository> - </action> - <action type="autoconf" /> - <action type="set_environment"> - <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin/</environment_variable> - </action> - </actions> - </install> - <readme>ART is a set of simulation tools to generate synthetic next-generation -sequencing reads. ART simulates sequencing reads by mimicking real -sequencing process with empirical error models or quality profiles summarized -from large recalibrated sequencing data. ART can also simulate reads using user -own read error model or quality profiles. ART supports simulation of -single-end, paired-end/mate-pair reads of three major commercial -next-generation sequencing platforms: Illumina's Solexa, Roche's 454 and -Applied Biosystems' SOLiD. ART can be used to test or benchmark a variety -of method or tools for next-generation sequencing data analysis, including -read alignment, de novo assembly, SNP and structure variation discovery. -ART was used as a primary tool for the simulation study of the 1000 Genomes -Project . ART is implemented in C++ with optimized algorithms and is highly -efficient in read simulation. ART outputs reads in the FASTQ format, and -alignments in the ALN format. ART can also generate alignments in the SAM -alignment or UCSC BED file format. -</readme> + <package name="art" version="2014.11.03"> + <repository changeset_revision="eaadf9edc5c1" name="package_art_2014_11_03" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> </tool_dependency> |