From a26e1da29326e8942808bc5396c9be7ef3fa5134 Mon Sep 17 00:00:00 2001
From: Niko <nikolaos.papadopoulos@univie.ac.at>
Date: Thu, 28 Nov 2024 12:19:11 +0100
Subject: [PATCH] update files to be used
---
08-submission/gff-04-convert_to_embl.sh | 5 ++---
1 file changed, 2 insertions(+), 3 deletions(-)
diff --git a/08-submission/gff-04-convert_to_embl.sh b/08-submission/gff-04-convert_to_embl.sh
index bbe13d8..8149726 100644
--- a/08-submission/gff-04-convert_to_embl.sh
+++ b/08-submission/gff-04-convert_to_embl.sh
@@ -4,13 +4,12 @@ module load conda
conda activate emblmygff3
GENOME=/lisc/project/zoology/pycnogonum/paper/zenodo/results/draft.fasta
-GFF=/lisc/scratch/zoology/pycnogonum/genome/submission/merged_sorted_named_dedup_filtered.gff3
+GFF=/lisc/scratch/zoology/pycnogonum/genome/submission/merged_sorted_named_dedup_flagged.gff3
RESDIR=/lisc/scratch/zoology/pycnogonum/genome/submission
cd $RESDIR || exit
EMBLmyGFF3 $GFF $GENOME \
- --expose_translations \
--topology linear \
--molecule_type 'genomic DNA' \
--transl_table 1 \
@@ -18,7 +17,7 @@ EMBLmyGFF3 $GFF $GENOME \
--taxonomy INV \
--locus_tag VPG \
--project_id PRJEB80537 \
- -vvv \
+ -v \
-o result.embl
gzip result.embl
\ No newline at end of file
--
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