functional annotationmacros.xmlinterproscan_4interproscaninterproscan.sh --version \$HOME/.interproscan-5/interproscan.properties
&&
## Now run interproscan
interproscan.sh
## disables the precalculated lookup service, all calculation will be run locally
-dp
--input '$input'
--seqtype $seqtype
-f ${','.join($oformat)}
#if $licensed.use == 'true' and $licensed.applications_licensed:
--applications ${','.join($applications)},${','.join($licensed.applications_licensed)}
#else:
--applications ${','.join($applications)}
#end if
--tempdir \$TEMP
$pathways
$goterms
$iprlookup
--cpu \${GALAXY_SLOTS:-4}
--output-file-base 'output'
]]>oformat and 'TSV' in outputsoformat and 'XML' in outputsoformat and 'GFF3' in outputsoformat and 'JSON' in outputspep_AACH01000027_1_1347
LVLLAAFDCIDDTKLVKQIIISEIINSLPNIVNDKYGRKVLLYLLSPRDPAHTVREIIEV
LQKGDGNAHSKKDTEIRRREMKYKRIVFKVGTSSLTNEDGSLSRSKVKDITQQLAMLHEA
GHELILVSSGAIAAGFGALGFKKRPTKIADKQASAAVGQGLLLEEYTTNLLLRQIVSAQI
LLTQDDFVDKRRYKNAHQALSVLLNRGAIPIINENDSVVIDELKVGDNDTLSAQVAAMVQ
ADLLVFLTDVDGLYTGNPNSDPRAKRLERIETINREIIDMAGGAGSSNGTGGMLTKIKAA
TIATESGVPVYICSSLKSDSMIEAAEETEDGSYFVAQEKGLRTQKQWLAFYAQSQGSIWV
DKGAAEALSQYGKSLLLSGIVEAEGVFSYGDIVTVFDKESGKSLGKGRVQFGASALEDML
RSQKAKGVLIYRDDWISITPEIQLLFTEF
...
>match$8_84_314
KRIVFKVGTSSLTNEDGSLSRSKVKDITQQLAMLHEAGHELILVSSGAIAAGFGALGFKK
RPTKIADKQASAAVGQGLLLEEYTTNLLLRQIVSAQILLTQDDFVDKRRYKNAHQALSVL
LNRGAIPIINENDSVVIDELKVGDNDTLSAQVAAMVQADLLVFLTDVDGLYTGNPNSDPR
AKRLERIETINREIIDMAGGAGSSNGTGGMLTKIKAATIATESGVPVYICS
]]>