Mercurial > repos > wolma > mimodd
diff reheader.xml @ 21:c46406466625 draft
Uploaded
| author | wolma |
|---|---|
| date | Sat, 11 Jun 2016 19:10:44 -0400 |
| parents | 93db2f9bca12 |
| children | 5db0545b9004 |
line wrap: on
line diff
--- a/reheader.xml Fri Apr 29 06:01:46 2016 -0400 +++ b/reheader.xml Sat Jun 11 19:10:44 2016 -0400 @@ -1,10 +1,10 @@ <tool id="reheader" name="Reheader BAM file" version="0.1.7.2"> <description>From a BAM file generate a new file with the original header (if any) replaced or modified by that found in a second SAM file</description> <expand macro="requirements"/> - <version_command>mimodd version -q</version_command> + <version_command>python3 -m MiModD version -q</version_command> <command> #if ($str($rg.treat_rg) != "ignore" and $str($rg.rginfo.source) == "from_form") or $str($co.treat_co) != "ignore": - mimodd header + python3 -m MiModD header #if $str($rg.treat_rg) != "ignore" and $str($rg.rginfo.source) == "from_form": #for $rginfo in $rg.rginfo.rg #if $str($rginfo.source_id): @@ -60,7 +60,7 @@ #end if | #end if - mimodd reheader "$inputfile" --sq ignore + python3 -m MiModD reheader "$inputfile" --sq ignore --rg ${rg.treat_rg} #if $str($rg.treat_rg) != "ignore": #if $str($rg.rginfo.source) == "from_file":