HIT-ImmunologyLab
commented
3 years ago Please grant permission to run diamond, you can perform the follwing command: chmod a+x -R DBSCAN-SWA/software I suggest you use the diamond given by DBSCAN-SWA in case of unmatch with the pre-built diamond database
-----原始邮件----- 发件人:fchiesa notifications@github.com 发送时间:2020-12-01 04:45:46 (星期二) 收件人: HIT-ImmunologyLab/DBSCAN-SWA DBSCAN-SWA@noreply.github.com 抄送: Subscribed subscribed@noreply.github.com 主题: [HIT-ImmunologyLab/DBSCAN-SWA] Issue with Diamond (#2)
When running the script I get this message:
step2:identify phage or phage-like genes DBSCAN-SWA/software/diamond/diamond blastp -d DBSCAN-SWA/db/database/uniprot.dmnd -q prova/protein_annotation/listeria_protein.faa -f 6 -e 1e-07 -o prova/phage_gene_cluster/listeria_blastp_uniprot.txt -p 20 --max-target-seqs 1 sh: 1: DBSCAN-SWA/software/diamond/diamond: Permission denied
It obviously ends with "No phage or phage-like gene was identified in the query genome!", since is not using diamond. I wanted to change path to the diamond installed by conda, but I'm not skilled enough. Do you have any clue? Thank you in advance
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When running the script I get this message:
step2:identify phage or phage-like genes DBSCAN-SWA/software/diamond/diamond blastp -d DBSCAN-SWA/db/database/uniprot.dmnd -q prova/protein_annotation/listeria_protein.faa -f 6 -e 1e-07 -o prova/phage_gene_cluster/listeria_blastp_uniprot.txt -p 20 --max-target-seqs 1 sh: 1: DBSCAN-SWA/software/diamond/diamond: Permission denied
It obviously ends with "No phage or phage-like gene was identified in the query genome!", since is not using diamond. I wanted to change path to the diamond installed by conda, but I'm not skilled enough. Do you have any clue? Thank you in advance