ERROR: No results report written!

[frahimov]

Description of the bug

My PGS run keeps failing. Initially I ran it with a custom score file. Then I tried --pgs_id, but still keeps failing. I use PLINK files with imputed genotype data. Any help or tips would be appreciated. Thank you.
nextflow.log

Command used and terminal output

#! /bin/bash
nextflow run pgscatalog/pgsc_calc \
        -profile docker \
        -latest \
        --input samplesheet_plink.csv \
        --target_build GRCh37 \
        --pgs_id PGS000754 \
        --min_overlap 0.10 \
        --parallel -c my_custom.config \
        --outdir /homes/rahimfx1/projects/immunology/reverse_translation/axspa/scripts/PGS_no_norm

Relevant files

my_custom.config.txt

samplesheet_plink.csv

System information

HPC, RedHat

[nebfield]

Could you please include some more information, like the complete terminal output and the .nextflow.log file in the directory where you run the workflow from

[frahimov]

I included the .nextflow.log file above. Here it is. nextflow.log

The only output I see is ERROR: No results report written!

[frahimov]

[nebfield]

Thanks! Sorry I missed it.

It sounds silly but your problem might be related to #272

Could you try renaming the sampleset to remove the _ character?

[frahimov]

It worked after changing the sampleset name! Thanks so much for your prompt response. I am going to try the run with the custom score file, and I hope I wont run into any issues.

[frahimov]

PGS run with a custom scores file worked too! Thanks again. I don't know why forgot about the sampleset naming.