Mercurial > repos > gga > chado_feature_load_fasta

comparison feature_load_fasta.xml @ 6:0e2c2d7d080f draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit a1460ea4dbbd5c6ff6576b2d6db8aaa04b0061a7
author gga
date Tue, 04 Sep 2018 12:21:09 -0400
parents 5b482826e065
children 11b65a23c85d
comparison
equal deleted inserted replaced
5:5b482826e065 6:0e2c2d7d080f
23 --re_name '$re_name' 23 --re_name '$re_name'
24 #end if 24 #end if
25 #if $re_uniquename: 25 #if $re_uniquename:
26 --re_uniquename '$re_uniquename' 26 --re_uniquename '$re_uniquename'
27 #end if 27 #end if
28 #if $match_on_name:
29 $match_on_name
30 #end if
31 28
32 $update 29 $match_on_name
30
31 $do_update
33 32
34 #if $ext_db.db: 33 #if $ext_db.db:
35 --db '${ext_db.db}' 34 --db '${ext_db.db}'
36 #end if 35 #end if
37 #if $ext_db.re_db_accession: 36 #if $ext_db.re_db_accession:
62 <param name="sequence_type" label="Sequence Type" type="text" value="contig" help="this should be a Sequence Ontology term"/> 61 <param name="sequence_type" label="Sequence Type" type="text" value="contig" help="this should be a Sequence Ontology term"/>
63 62
64 <param name="re_name" label="Name regular expression" argument="re_name" type="text" help="Regular expression to extract the feature name from the fasta sequence id (first capturing group will be used)." optional="true" /> 63 <param name="re_name" label="Name regular expression" argument="re_name" type="text" help="Regular expression to extract the feature name from the fasta sequence id (first capturing group will be used)." optional="true" />
65 <param name="re_uniquename" label="Uniquename regular expression" argument="re_uniquename" type="text" help="Regular expression to extract the feature name from the fasta sequence id (first capturing group will be used)." optional="true" /> 64 <param name="re_uniquename" label="Uniquename regular expression" argument="re_uniquename" type="text" help="Regular expression to extract the feature name from the fasta sequence id (first capturing group will be used)." optional="true" />
66 <param name="match_on_name" label="Match on name" argument="match_on_name" type="boolean" truevalue="--match_on_name" falsevalue="" help="Match existing features using their name instead of their uniquename" /> 65 <param name="match_on_name" label="Match on name" argument="match_on_name" type="boolean" truevalue="--match_on_name" falsevalue="" help="Match existing features using their name instead of their uniquename" />
67 <param name="update" label="Update" argument="update" type="boolean" truevalue="--update" falsevalue="" help="Update existing feature with new sequence instead of throwing an error" /> 66 <param name="do_update" label="Update" argument="update" type="boolean" truevalue="--update" falsevalue="" help="Update existing feature with new sequence instead of throwing an error" />
68 <conditional name="relationships"> 67 <conditional name="relationships">
69 <param name="rel_type" 68 <param name="rel_type"
70 argument="--rel_type" 69 argument="--rel_type"
71 type="select" 70 type="select"
72 label="Relationship type" 71 label="Relationship type"