localcolab fold skipping other sequences in csv file?

[Amos]

log.txt

2024-03-17 09:50:23,454 Skipping TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_3 (result.zip)
2024-03-17 09:50:23,454 Skipping TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_4 (result.zip)
2024-03-17 09:50:23,454 Skipping TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_2 (result.zip)
2024-03-17 09:50:23,454 Skipping TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_5 (result.zip)

my csv file

id,sequence
TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_1,aa_sequence
TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_2,aa_sequence
TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_3,aa_sequence
TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_4,aa_sequence
TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3_5,aa_sequence

colabfold_batch /scratch/project/tcr_ml/colabfold/cancer/TRUST_TB-000025-D1WBLL-01_RNAseq_L001_R1_airr_extracted.tsv_cdr3.csv results --num-recycle 10 --use-gpu-relax --amber --zip --recompile-padding 0 this is the command i use to run localcolabfold.

it runs the first amino acid sequence but once its complete it skips the remaining sequence, is it something with the zip command? i run it without the zip command and it processed all the sequence. results is a directory. Thanks.

[Aastha]

Hi @amoschoomy,

I have the same issue, how did you fix it?

Thanks!

[Amos]

I just ran it without the zip parameter and resort to zipping the entire results folder once it is done