Mercurial > repos > rmarenco > psltobed
changeset 3:e4bed427031f draft default tip
planemo upload commit 19a71183895f05c4b532bcd5fc60df7322c4f07c
| author | rmarenco |
|---|---|
| date | Mon, 22 Aug 2016 11:23:53 -0400 |
| parents | 30fd14cf565c |
| children | |
| files | README.md pslToBed.xml tool_dependencies.xml |
| diffstat | 3 files changed, 9 insertions(+), 26 deletions(-) [+] |
line wrap: on
line diff
--- a/README.md Thu Jul 14 18:03:58 2016 -0400 +++ b/README.md Mon Aug 22 11:23:53 2016 -0400 @@ -2,5 +2,3 @@ --------------------------- pslToBed: transform a psl format file to a bed format file. - -(Contains pslToBed binary for [linux.x86_64](http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/))
--- a/pslToBed.xml Thu Jul 14 18:03:58 2016 -0400 +++ b/pslToBed.xml Mon Aug 22 11:23:53 2016 -0400 @@ -1,6 +1,7 @@ <tool id="pslToBed" name="pslToBed" version="0.1.0"> <requirements> - <requirement type="package" version="1.0">pslToBed</requirement> + <!-- Requires Conda --> + <requirement type="package" version="324">ucsc-psltobed</requirement> </requirements> <stdio> <exit_code range="1:" /> @@ -9,12 +10,17 @@ pslToBed $input $output ]]></command> <inputs> - <param name="input" type="data" format="psl" /> + <param name="input" label="Psl file" type="data" format="psl" /> </inputs> <outputs> <data name="output" format="bed" /> </outputs> <help><![CDATA[ - pslToBed: transform a psl format file to a bed format file. + Transform a Psl format file to a Bed format file. + + + Input: Psl File + + Ouput: Bed File ]]></help> </tool> \ No newline at end of file
--- a/tool_dependencies.xml Thu Jul 14 18:03:58 2016 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,21 +0,0 @@ -<?xml version="1.0"?> -<tool_dependency> - <!-- Package blastXmlToPsl --> - <package name="pslToBed" version="1.0"> - <install version="1.0"> - <actions> - <action type="download_binary" target_directory="bin"> - <url_template os="darwin">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.${architecture}/pslToBed</url_template> - <url_template os="linux">http://hgdownload.cse.ucsc.edu/admin/exe/linux.${architecture}/pslToBed</url_template> - </action> - <action type="chmod"> - <file mode="750">$INSTALL_DIR/bin/pslToBed</file> - </action> - <action type="set_environment"> - <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> - </action> - </actions> - </install> - <readme>The tools downloaded by this dependency definition are free for academic use.</readme> - </package> -</tool_dependency> \ No newline at end of file