From 083f0c1dacc111fc8cf52399833f701062778488 Mon Sep 17 00:00:00 2001 From: Leila011 Date: Mon, 19 Aug 2024 16:38:06 +0200 Subject: [PATCH] update config: add requirements, add keywords, update --config description --- src/agat/agat_sp_add_start_and_stop/config.vsh.yaml | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/src/agat/agat_sp_add_start_and_stop/config.vsh.yaml b/src/agat/agat_sp_add_start_and_stop/config.vsh.yaml index abeededa..d095249e 100644 --- a/src/agat/agat_sp_add_start_and_stop/config.vsh.yaml +++ b/src/agat/agat_sp_add_start_and_stop/config.vsh.yaml @@ -5,7 +5,7 @@ description: | script looks at the nucleotide sequence and checks the presence of start and stop codons. The script works even if the start or stop codon are split over several CDS features. -keywords: [gene annotations] +keywords: [gene annotations, CDS, GFF] links: homepage: https://github.com/NBISweden/AGAT documentation: https://agat.readthedocs.io/en/latest/tools/agat_sp_add_start_and_stop.html @@ -14,6 +14,8 @@ links: references: doi: 10.5281/zenodo.3552717 license: GPL-3.0 +requirements: + - commands: [agat] authors: - __merge__: /src/_authors/leila_paquay.yaml roles: [ author, maintainer ] @@ -66,7 +68,7 @@ argument_groups: - name: --config alternatives: [-c] description: | - Input agat config file. By default AGAT takes as input agat_config.yaml file from the working directory if any, otherwise it takes the original agat_config.yaml shipped with AGAT. To get the agat_config.yaml locally type: `agat config --expose`. The `--config` option gives you the possibility to use your own AGAT config file (located elsewhere or named differently). + AGAT config file. By default AGAT takes the original agat_config.yaml shipped with AGAT. The `--config` option gives you the possibility to use your own AGAT config file (located elsewhere or named differently). type: file required: false example: custom_agat_config.yaml