T Coffee

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sunny kevin

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Apr 7, 2021, 8:53:01 AM4/7/21
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Hi
I'm unable to run the MSA alignment using threads/core option ? after passing the cores/threads
still it runs only on 1 core. I don't understand. Do I have a problem with the bash cmd ?  Help!

Software version - T-COFFEE_installer_Version_13.45.0.4846264_linux_x64
CMD:
time /home/sunn/data/softwares/evaluation/msa/T-COFFEE_installer_Version_13.45.0.4846264_linux_x64/bin/t_coffee /home/sunn/data/softwares/ncbi/ncbi-blast-2.11.0+/bin/57blastN/orthoblast/nucl_blast_57.65_final_orthocdhit.fa -mode procoffee -type=dna -multi_core=msa -thread 20 -n_core 10 -output=clustalw,fasta_aln,msf > t_coffee1.log
While alignment process -
INPUT FILES
        Input File (M) promo_pair
        Input File (S) /home/likith/data/softwares/ncbi/ncbi-blast-2.11.0+/bin/57blastN/orthoblast/nucl_blast_57.65_final_orthocdhit.fa  Format fasta_seq
pid 43712 -- Sequence TRINITY_DN1316_c0_g1_i9.p1 is duplicated in file /home/likith/data/softwares/ncbi/ncbi-blast-2.11.0+/bin/57blastN/orthoblast/nucl_blast_57.65_final_orthocdhit.fa. The sequence will be renamed
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 6666 SEQUENCES  [DNA]
        Multi Core Mode (read): 1 processor(s):

Thanks
Kevin
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