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ERROR running Cuffmerge in reference based RNA-SEQ analysis?

I am using cufflinks for the reference based RNA-Seq analysis. During the step of cuffmerge I was shown an error that I have attached below. can anyone please help me out solving this problem.

Command used:

cuffmerge -g ../../../../Reference_files/PGSC_DM_V403_genes.gtf -s ../../../../Reference_files/potato_dm_v404_all_pm_un.fasta -p 10 assemblies.txt

ERROR MESSAGE:

[Mon May  9 08:53:21 2022] Beginning transcriptome assembly merge
-------------------------------------------

[Mon May  9 08:53:21 2022] Preparing output location ./merged_asm/
Traceback (most recent call last):
  File "/usr/bin/cuffmerge", line 580, in <module>
    sys.exit(main())
  File "/usr/bin/cuffmerge", line 526, in main
    run_log = open(logging_dir + "run.log", "w", 0)
ValueError: can't have unbuffered text I/O
cuffmerge rna-seq cufflinks
• 2,109 views • link
updated by Amin • Amin • written by Meeran • Meeran

I am also facing this problem. Did you get any solution?

cuffmerge -g /mnt/c/Desktop/Bioinformatic/Genome_seq/hg38.refGene.gtf -p 8 /mn
t/c/Desktop/Cuffmerge/assemblies.txt

[Tue May 30 13:53:13 2023] Beginning transcriptome assembly merge
-------------------------------------------

[Tue May 30 13:53:13 2023] Preparing output location ./merged_asm/
Traceback (most recent call last):
  File "/usr/bin/cuffmerge", line 580, in <module>
    sys.exit(main())
  File "/usr/bin/cuffmerge", line 526, in main
    run_log = open(logging_dir + "run.log", "w", 0)
ValueError: can't have unbuffered text I/O
• 0 views • link
updated by Ram Ram • written by Motiar • Motiar

Please do not add answers unless you're answering the top level question. Instead, use Add Comment or Add Reply as appropriate. I've moved your post to the right location, please be more careful in the future.

• 0 views • link
written by Ram Ram

I am also facing this problem. Did you get any solution?

• 0 views • link
written by Amin • Amin

0 answers

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