Error in psiPerEvent: "Unexpected number of fields. 6 expected, 5 given"

[Taylorain]

Dear SUPPA developers,

I’m encountering an error when trying to compute PSI values using the psiPerEvent subcommand. I suspect it’s related to the format of either my .ioe or expression file, but I cannot resolve it.

What I am trying to do

I’m analyzing alternative splicing differences between freshwater and seawater samples using the following workflow:
Generate AS events from GTF:

python /home/software/SUPPA2/SUPPA-2.4/suppa.py generateEvents \
  -i ../1.6.merge.agat.gtf \
  -o merge.events \
  --event-type SE SS MX RI FL \
  -f ioe \
  -b S

Merge all .ioe files:

awk 'FNR==1 && NR!=1 { next } 1' *.ioe > merge.events.all.ioe

Run PSI estimation:

python /home/software/SUPPA2/SUPPA-2.4/suppa.py psiPerEvent \
  -i /bio/sup_drs/6.2.AS/1_step1/merge.events.all.ioe \
  -e suppa_tpm.tsv \
  -o general_events

Error Message

When running psiPerEvent, I get the following error repeatedly:

ERROR:lib.tools:<line_number>. Unexpected number of fields. 6 expected, 5 given. Skipping line...

Input Files

merge.events.all.ioe (first 3 lines):

seqname gene_id event_id alternative_transcripts total_transcripts
ptg000001l DRS_000562 DRS_000562;A3:ptg000001l:29280-30515:29220-30515:- Lm_00001430 Lm_00001431,Lm_00001430
ptg000001l DRS_000562 DRS_000562;A3:ptg000001l:29280-30515:29118-30515:- Lm_00001430 Lm_00001432,Lm_00001430

suppa_tpm.tsv (first 5 lines):

sample1 sample2 sample3 sample4
Lm_00000001   7.16778 8.68441 7.65165 8.27315
Lm_00000002   0.40268 0.81928 0.40271 0.30084
Lm_00000003   2.33556 2.04821 2.65794 1.27857
Lm_00000004   24.8053 25.3159 24.1631 21.8110

All fields are tab-delimited.

Question

What could be causing this "6 expected, 5 given" error? Is there something wrong with my .ioe format or TPM file?

Thank you for your help!

[chenchen-eng]

Hello, may I ask if there is a solution to this problem?