Mercurial > repos > rnateam > compalignp
changeset 8:8ebf2202a0d1 draft default tip
Uploaded
author | rnateam |
---|---|
date | Mon, 08 Jun 2015 08:31:57 -0400 |
parents | eeedd1755f92 |
children | |
files | compalignp.xml test-data/eukaryotic-trnas_2.1.clustal test-data/eukaryotic-trnas_2.1.out tests/eukaryotic-trnas_2.1.clustal tests/eukaryotic-trnas_2.1.out tool_dependencies.xml |
diffstat | 6 files changed, 16 insertions(+), 13 deletions(-) [+] |
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--- a/compalignp.xml Fri Jun 05 06:10:48 2015 -0400 +++ b/compalignp.xml Mon Jun 08 08:31:57 2015 -0400 @@ -12,14 +12,12 @@ compalignp -t $rna_alignment_target -r $rna_alignment_reference - $flag_verbose > $output ]]> </command> <inputs> - <param format="stockholm" name="rna_alignment_target" type="data" label="Target RNA Alignment" help="(-t)" /> - <param format="stockholm" name="rna_alignment_reference" type="data" label="Reference RNA Alignment" help="(-r)" /> - <param name="flag_verbose" type="boolean" truevalue="-v" falsevalue="" label="Verbose output" help="(-v)" /> + <param format="clustalw,stockholm" name="rna_alignment_target" type="data" label="Target RNA Alignment" help="(-t)" /> + <param format="clustalw,stockholm" name="rna_alignment_reference" type="data" label="Reference RNA Alignment" help="(-r)" /> </inputs> <outputs> <data name="output" format="txt" />
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/eukaryotic-trnas_2.1.clustal Mon Jun 08 08:31:57 2015 -0400 @@ -0,0 +1,7 @@ +CLUSTAL 2.1 multiple sequence alignment + + +Anolis_carolinensis_chrUn_GL34 TGGGAATTAGCTCAAATGGTAGAGCGCTCGCTTAGCATGTGAGAGGTAGTGGGATCGATGCCCACATTCTCCA +Anolis_carolinensis_chrUn_GL35 GGGGAATTAGCTCAAATGGTAGAGCGCTCGCTTAGCATGCGAGAGGTAGCGGGATTGATGCCCGCATTCTCCA + ************************************** ************** ******* ********* +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/eukaryotic-trnas_2.1.out Mon Jun 08 08:31:57 2015 -0400 @@ -0,0 +1,1 @@ +1.00
--- a/tests/eukaryotic-trnas_2.1.clustal Fri Jun 05 06:10:48 2015 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,7 +0,0 @@ -CLUSTAL 2.1 multiple sequence alignment - - -Anolis_carolinensis_chrUn_GL34 TGGGAATTAGCTCAAATGGTAGAGCGCTCGCTTAGCATGTGAGAGGTAGTGGGATCGATGCCCACATTCTCCA -Anolis_carolinensis_chrUn_GL35 GGGGAATTAGCTCAAATGGTAGAGCGCTCGCTTAGCATGCGAGAGGTAGCGGGATTGATGCCCGCATTCTCCA - ************************************** ************** ******* ********* -
--- a/tests/eukaryotic-trnas_2.1.out Fri Jun 05 06:10:48 2015 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,1 +0,0 @@ -1.00
--- a/tool_dependencies.xml Fri Jun 05 06:10:48 2015 -0400 +++ b/tool_dependencies.xml Mon Jun 08 08:31:57 2015 -0400 @@ -13,9 +13,14 @@ </repository> </action> <action type="shell_command">make</action> + <action type="move_file"> + <source>compalignp</source> + <destination>$INSTALL_DIR/bin</destination> + </action> <action type="set_environment"> - <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable> + <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> </action> + <environment_variable action="set_to" name="COMPALIGNP_ROOT_PATH">$INSTALL_DIR/bin</environment_variable> </actions> </install> </package>