Closed mingxues2024 closed 1 month ago
fpusan
commented
1 month ago Is /lustre/BIF/nobackup/sun091/metagenome/subset_6/A9/ a path to a SqueezeMeta project? Or did you maybe get this using sqm_reads.pl or sqm_longreads.pl.
What's the output of ls /lustre/BIF/nobackup/sun091/metagenome/subset_6/A9/?
mingxues2024
commented
1 month ago Dear sir,
I have run it again and it works. Maybe because for the unstable server.
thanks~~
发件人: Fernando Puente-Sánchez @.> 发送时间: 2024年7月27日 12:11 收件人: jtamames/SqueezeMeta @.> 抄送: Sun, Mingxue @.>; Author @.> 主题: Re: [jtamames/SqueezeMeta] sqm2tables.py (Issue #869)
Is /lustre/BIF/nobackup/sun091/metagenome/subset_6/A9/ a path to a SqueezeMeta project? Or did you maybe get this using sqm_reads.pl or sqm_longreads.pl. What's the output of ls /lustre/BIF/nobackup/sun091/metagenome/subset_6/A9/?
― Reply to this email directly, view it on GitHubhttps://github.com/jtamames/SqueezeMeta/issues/869#issuecomment-2254102187, or unsubscribehttps://github.com/notifications/unsubscribe-auth/BFTDQ6JPS6I66E7YYRHJI4LZONW6FAVCNFSM6AAAAABLKOE4LKVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDENJUGEYDEMJYG4. You are receiving this because you authored the thread.Message ID: @.***>
mingxues2024
commented
4 weeks ago yes, this result was from squeezemeta.
发件人: Fernando Puente-Sánchez @.> 发送时间: 2024年7月27日 12:11 收件人: jtamames/SqueezeMeta @.> 抄送: Sun, Mingxue @.>; Author @.> 主题: Re: [jtamames/SqueezeMeta] sqm2tables.py (Issue #869)
Is /lustre/BIF/nobackup/sun091/metagenome/subset_6/A9/ a path to a SqueezeMeta project? Or did you maybe get this using sqm_reads.pl or sqm_longreads.pl. What's the output of ls /lustre/BIF/nobackup/sun091/metagenome/subset_6/A9/?
― Reply to this email directly, view it on GitHubhttps://github.com/jtamames/SqueezeMeta/issues/869#issuecomment-2254102187, or unsubscribehttps://github.com/notifications/unsubscribe-auth/BFTDQ6JPS6I66E7YYRHJI4LZONW6FAVCNFSM6AAAAABLKOE4LKVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDENJUGEYDEMJYG4. You are receiving this because you authored the thread.Message ID: @.***>
fpusan
commented
4 weeks ago Ok, if it worked maybe there was some issue with the server before... let me know if the issue reappears
Dear sir,
I want to use sqm2tables.py to aggregate the abundance of ORFs... But there still some error happened. sqm2tables.py /lustre/BIF/nobackup/sun091/metagenome/subset_6/A9 "/lustre/BIF/nobackup/sun091/metagenome/6_others_squeeze/output/A9/"
Traceback (most recent call last): File "/lustre/BIF/nobackup/sun091/miniforge3/envs/SqueezeMeta/bin/sqm2tables.py", line 223, in
main(parse_args())
File "/lustre/BIF/nobackup/sun091/miniforge3/envs/SqueezeMeta/bin/sqm2tables.py", line 41, in main
perlVars = parse_conf_file(args.project_path, override = {'$projectdir': args.project_path})
File "/lustre/BIF/nobackup/sun091/miniforge3/envs/SqueezeMeta/SqueezeMeta/utils/../lib/utils.py", line 22, in parse_conf_file
for line in open('{}/SqueezeMeta_conf.pl'.format(project_path)):
FileNotFoundError: [Errno 2] No such file or directory: '/lustre/BIF/nobackup/sun091/metagenome/subset_6/A9/SqueezeMeta_conf.pl'