Mercurial > repos > peterjc > clinod
changeset 15:c2f64216ff1d draft
Uploaded v0.0.7, support for $GALAXY_SLOTS
| author | peterjc |
|---|---|
| date | Thu, 17 Oct 2013 06:04:11 -0400 |
| parents | 0d39248a7a9f |
| children | a8c978f17251 |
| files | tools/clinod/README.rst tools/clinod/clinod.xml |
| diffstat | 2 files changed, 3 insertions(+), 3 deletions(-) [+] |
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--- a/tools/clinod/README.rst Tue Sep 17 11:43:15 2013 -0400 +++ b/tools/clinod/README.rst Thu Oct 17 06:04:11 2013 -0400 @@ -67,6 +67,7 @@ - Use reStructuredText for this README file. - Updated citation information (Cock et al. 2013). - Development moved to GitHub, https://github.com/peterjc/pico_galaxy +v0.0.7 - Use the new $GALAXY_SLOTS environment variable for thread count. ======= ======================================================================
--- a/tools/clinod/clinod.xml Tue Sep 17 11:43:15 2013 -0400 +++ b/tools/clinod/clinod.xml Thu Oct 17 06:04:11 2013 -0400 @@ -1,4 +1,4 @@ -<tool id="clinod" name="Nucleolar localization sequence Detector (NoD)" version="0.0.5"> +<tool id="clinod" name="Nucleolar localization sequence Detector (NoD)" version="0.0.7"> <description>Find nucleolar localization signals (NoLSs) in protein sequences</description> <requirements> <requirement type="binary">java</requirement> @@ -7,8 +7,7 @@ <command> ##The Galaxy Tool Shed installation should define $CLINOD to point at folder ##containing both clinod-1.3.jar and the batchman binary: -java -jar \$CLINOD/clinod-1.3.jar -in="$fasta_file" -out="$tabular_file" -t=2 -f=MEDIUM_TAB -nonols -clean_sequence -##I want the number of threads to be a Galaxy config option... +java -jar \$CLINOD/clinod-1.3.jar -in="$fasta_file" -out="$tabular_file" -t="\$GALAXY_SLOTS" -f=MEDIUM_TAB -nonols -clean_sequence ##TODO - Make the -clean_sequence argument a parameter? </command> <stdio>