Mercurial > repos > iuc > funannotate_predict
comparison funannotate_predict.xml @ 6:7abc5f6dd595 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/funannotate commit 8307455ce2bb36981fee509f556ff17c227a9d8a
author | iuc |
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date | Sun, 22 Jan 2023 17:30:57 +0000 |
parents | d3ff5fd62517 |
children | 51b6ee65ef7f |
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5:2bba2ff070d9 | 6:7abc5f6dd595 |
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20 ## Need to copy too as the test_data is read only on CI | 20 ## Need to copy too as the test_data is read only on CI |
21 cp -r '${database.fields.path}' './hacked_database' && | 21 cp -r '${database.fields.path}' './hacked_database' && |
22 sed -i.bak 's|/tmp/prout|'`pwd`'/hacked_database|' './hacked_database/trained_species/fly/info.json' && | 22 sed -i.bak 's|/tmp/prout|'`pwd`'/hacked_database|' './hacked_database/trained_species/fly/info.json' && |
23 #end if | 23 #end if |
24 | 24 |
25 mkdir -p input/ && | |
26 ln -s '${input}' input/input.fasta && | |
27 | |
25 funannotate predict | 28 funannotate predict |
26 --input '${input}' | 29 --input input/input.fasta |
27 --out output | 30 --out output |
28 #if $uglyTestingHack == "true": | 31 #if $uglyTestingHack == "true": |
29 --database `pwd`'/hacked_database' | 32 --database `pwd`'/hacked_database' |
30 #else | 33 #else |
31 --database '$database.fields.path' | 34 --database '$database.fields.path' |