Mercurial > repos > iuc > deseq2
comparison deseq2.xml @ 7:681fd2c5f47a draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deseq2 commit 470804fe1d65ce5bf49804c7f249c51f6a567f9f-dirty
| author | iuc |
|---|---|
| date | Sat, 05 Sep 2015 04:58:32 -0400 |
| parents | 982bd8bfa44c |
| children | 6a8678140dd9 |
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| 6:982bd8bfa44c | 7:681fd2c5f47a |
|---|---|
| 23 <version_command> | 23 <version_command> |
| 24 <![CDATA[ | 24 <![CDATA[ |
| 25 echo $(R --version | grep version | grep -v GNU)", DESeq2 version" $(R --vanilla --slave -e "library(DESeq2); cat(sessionInfo()\$otherPkgs\$DESeq2\$Version)" 2> /dev/null | grep -v -i "WARNING: ") | 25 echo $(R --version | grep version | grep -v GNU)", DESeq2 version" $(R --vanilla --slave -e "library(DESeq2); cat(sessionInfo()\$otherPkgs\$DESeq2\$Version)" 2> /dev/null | grep -v -i "WARNING: ") |
| 26 ]]> | 26 ]]> |
| 27 </version_command> | 27 </version_command> |
| 28 <command interpreter="Rscript"> | 28 <command> |
| 29 <![CDATA[ | 29 <![CDATA[ |
| 30 #import json | 30 #import json |
| 31 \$DESEQ2_ROOT_PATH/script/deseq2.R | 31 Rscript \$DESEQ2_ROOT_PATH/script/deseq2.R |
| 32 -o "$deseq_out" | 32 -o "$deseq_out" |
| 33 #if $pdf: | 33 #if $pdf: |
| 34 -p "$plots" | 34 -p "$plots" |
| 35 #end if | 35 #end if |
| 36 #set $temp_factor_names = list() | 36 #set $temp_factor_names = list() |