aertslab
create_cistarget_motif_databases
Describe the bug Hi, I try to create a custom cistarget motif database according to the tutorial: https://scenicplus.readthedocs.io/en/latest/human_cerebellum_ctx_db.html However, when I ran the create_cistarget_motif_databases I get an error that the scoring was not done for any of the motifs (see error message below). Please help.
To Reproduce "${SCRIPT_DIR}/create_cistarget_motif_databases.py" -f ${FASTA_FILE} -M ${CBDIR} -m ${MOTIF_LIST} -o ${OUT_DIR}/${DATABASE_PREFIX} --bgpadding 1000 -t 20 -c "/home/gilgolan/bioinfo_analysis/scenicplus_multiomic/cistarget/cbust"
Error output For any of the motifs, I get this message: Error: Non-zero exit status for: '/home/gilgolan/bioinfo_analysis/scenicplus_multiomic/cistarget/cbust -f 4 -c 0.0 -r 10000 -b 1000 -t 1 /home/gilgolan/bioinfo_analysis/scenicplus_multiomic/cistarget/aertslab_motif_colleciton/v10nr_clust_public/singletons/transfac_public__M00159.cb /home/gilgolan/bioinfo_analysis/scenicplus_multiomic/cistarget/mm10.p3_pituitary_multiomic.with_1kb_bg_padding.fa' Error: Non-zero exit status for: '/home/gilgolan/bioinfo_analysis/scenicplus_multiomic/cistarget/cbust -f 4 -c 0.0 -r 10000 -b 1000 -t 1 /home/gilgolan/bioinfo_analysis/scenicplus_multiomic/cistarget/aertslab_motif_colleciton/v10nr_clust_public/singletons/yetfasco__YDR174W_2249.cb /home/gilgolan/bioinfo_analysis/scenicplus_multiomic/cistarget/mm10.p3_pituitary_multiomic.with_1kb_bg_padding.fa'
Scoring 10249 motifs with Cluster-Buster took: 305.962677 seconds
Error: None of 10249 motifs were scored successfully.
Expected behavior Motifs will be scored, a cistarget database will be created.
Screenshots If applicable, add screenshots to help explain your problem or show the format of the input data for the command/s.
Version (please complete the following information):
Python: 3.11.10 SCENIC+:1.0a1 If a bug is related to another module [e.g. matplotlib 3.3.9] Additional context Add any other context about the problem here.
