Mercurial > repos > bgruening > infernal
changeset 3:a5ef9159caa9 draft
Uploaded
author | bgruening |
---|---|
date | Sat, 31 Aug 2013 08:44:28 -0400 |
parents | 468be760eba3 |
children | 351013907f11 |
files | cmsearch.xml tool-data/infernal.loc.sample |
diffstat | 2 files changed, 6 insertions(+), 6 deletions(-) [+] |
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--- a/cmsearch.xml Sat Aug 31 08:11:53 2013 -0400 +++ b/cmsearch.xml Sat Aug 31 08:44:28 2013 -0400 @@ -30,9 +30,9 @@ #end if #if $reporting_thresholds_opts.reporting_thresholds_selector == "-E": - -E $inclusion_thresholds_opts.E + -E $reporting_thresholds_opts.E #else: - -T $inclusion_thresholds_opts.T + -T $reporting_thresholds_opts.T #end if #if $cm_opts.cm_opts_selector == "db": @@ -48,7 +48,7 @@ </command> <inputs> - <param name="seqdb" type="data" format="fasta,embl,genbank" label="Sequence database"/> + <param name="seqdb" type="data" format="fasta" label="Sequence database"/> <conditional name="cm_opts"> <param name="cm_opts_selector" type="select" label="Subject covariance models"> @@ -65,12 +65,12 @@ </param> </when> <when value="histdb"> - <param name="cmfile" type="data" format="fasta" label="Covariance models"/> + <param name="cmfile" type="data" format="fasta" label="Covariance models file from the history."/> </when> </conditional> <param name="g" truevalue="-g" falsevalue="" checked="False" type="boolean" - label="Turn on the glocal alignment algorithm ..." help="... global with respect to the query model and local with respect to the target database."/> + label="Turn on the glocal alignment algorithm" help="... global with respect to the query model and local with respect to the target database."/> <param name="bottomonly" truevalue="--bottomonly" falsevalue="" checked="False" type="boolean" label="Only search the bottom (Crick) strand of target sequences" help="in the sequence database"/>
--- a/tool-data/infernal.loc.sample Sat Aug 31 08:11:53 2013 -0400 +++ b/tool-data/infernal.loc.sample Sat Aug 31 08:44:28 2013 -0400 @@ -9,7 +9,7 @@ #Your homer.loc file should include an entry per line for each "base name" #you have stored. For example: # -#rfam01 RFAM 4.2 08 Aug 2013 /data/0/galaxy_data/infernal/08_08_2013/rfam.cm +#rfam01 RFAM 4.2 08 Aug 2013 /data/0/galaxy_data/infernal/08_08_2013/rfam.cm # #...etc... #