lllyasviel / Fooocus

Focus on prompting and generating
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problem with bowtie mapping #97

Closed Azimdine closed 10 months ago

Azimdine commented 1 year ago

Dears SqueezeMeta developpers, I've been trying to analyse my data for several days now but I always get an error on step 10. The first sample passes but when it wants to start the 2nd sample, I always get an error like: the program has finished abnormally.  [34m[6 days, 16 hours, 3 minutes, 6 seconds]: STEP10 -> MAPPING READS: 10.mapsamples.pl  Reading samples from /pasteur/zeus/projets/p02/Biomics/Bioinfo/projet_Ariane/Result/data/00.Result.samples Metagenomes found: 32 Mapping with Bowtie2 (Langmead and Salzberg 2012, Nat Methods 9(4), 357-9) Creating reference from contigs Working with sample 1: B1 Getting raw reads Aligning to reference with bowtie Calculating contig coverage Reading contig length from /pasteur/zeus/projets/p02/Biomics/Bioinfo/projet_Ariane/Result/intermediate/01.Result.lon Counting with sqm_counter: Opening 36 threads 1626281 reads counted 3252561 reads counted 4878841 reads counted 6505121 reads counted 8131401 reads counted 9757681 reads counted 11383961 reads counted 13010241 reads counted 14636521 reads counted 16262801 reads counted 17889081 reads counted 19515361 reads counted 21141641 reads counted 22767921 reads counted 24394201 reads counted 26020481 reads counted 27646761 reads counted 29273041 reads counted 30899321 reads counted 32525601 reads counted 34151881 reads counted 35778161 reads counted 37404441 reads counted 39030721 reads counted 40657001 reads counted reads counted 42283281 reads counted reads counted reads counted reads counted reads counted reads counted reads counted reads counted reads counted reads counted Working with sample 2: B10 Getting raw reads Aligning to reference with bowtie Stopping in STEP10 -> 10.mapsamples.pl. Program finished abnormally 

Before I was using the previous version, it didn't work and a week ago, I updated the pipline and I'm on the latest version (1.6.2) but I still have the same problem. could you help me solve the problem? thank you for your help. please find attached the syslog.

syslog.zip

mashb1t commented 10 months ago

We haven't experienced this kind of error in a while now. Please try again with the latest version of Fooocusand feel free to reopen if still relevant.