From a1a0ad116f1a0e8133aa41877f3b67af599820a6 Mon Sep 17 00:00:00 2001
From: Oliver Schwengers <oliver.schwengers@computational.bio.uni-giessen.de>
Date: Fri, 21 Jan 2022 14:16:48 +0100
Subject: [PATCH] fix CWL edam input types
---
bakta.cwl | 24 ++++++++++++------------
1 file changed, 12 insertions(+), 12 deletions(-)
diff --git a/bakta.cwl b/bakta.cwl
index 54404326..cf3319a9 100644
--- a/bakta.cwl
+++ b/bakta.cwl
@@ -143,57 +143,57 @@ outputs:
- doc: Hypothetical CDS AA sequences as Fasta
id: hypo_sequences_cds
type: File
- format: edam:format_1929
+ format: edam:format_2200
outputBinding: {glob: '*.hypotheticals.faa'}
- doc: Information on hypothetical CDS as TSV
id: hypo_annotation_tsv
type: File
- format: edam:format_1929
+ format: edam:format_3475
outputBinding: {glob: '*.hypotheticals.tsv'}
- doc: Annotation as TSV
id: annotation_tsv
type: File
- format: edam:format_1929
+ format: edam:format_3475
outputBinding: {glob: '*.tsv'}
- - doc: Annotation statistics as txt
- id: annotation_txt
+ - doc: Annotation summary as txt
+ id: summary_txt
type: File
format: edam:format_2330
outputBinding: {glob: '*.txt'}
- doc: Annotation as JSON
id: annotation_json
type: File
- format: edam:format_1929
+ format: edam:format_3464
outputBinding: {glob: '*.json'}
- doc: Annotation as GFF3
id: annotation_gff3
type: File
- format: edam:format_1929
+ format: edam:format_1939
outputBinding: {glob: '*.gff3'}
- doc: Annotation as GenBank
id: annotation_gbff
type: File
- format: edam:format_1929
+ format: edam:format_1936
outputBinding: {glob: '*.gbff'}
- doc: Annotation as EMBL
id: annotation_embl
type: File
- format: edam:format_1929
+ format: edam:format_1927
outputBinding: {glob: '*.embl'}
- doc: Genome Sequences as Fasta
id: sequences_fna
type: File
- format: edam:format_1929
+ format: edam:format_2200
outputBinding: {glob: '*.fna'}
- doc: Gene DNA sequences as Fasta
id: sequences_fna
type: File
- format: edam:format_1929
+ format: edam:format_2200
outputBinding: {glob: '*.ffn'}
- doc: CDS AA sequences as Fasta
id: sequences_cds
type: File
- format: edam:format_1929
+ format: edam:format_2200
outputBinding: {glob: '*.faa'}
s:author: