Issue in running examples

[Linda Maldera]

Greetings Dr Glessner,

I've been having some issues in running the examples on ParseCNV2 (ParseCNV2_6-28-22).
If I run:
perl ParseCNV2.pl -i Cases.rawcnv -c Cases.list -b hg19
or any other of the commands written in the gitHub page I get the same error:

Error: All variants removed due to minor allele threshold(s)
(--maf/--max-maf/--mac/--max-mac).
Error: All variants removed due to minor allele threshold(s)
(--maf/--max-maf/--mac/--max-mac).
Error: All variants removed due to minor allele threshold(s)
(--maf/--max-maf/--mac/--max-mac).
Error: No entries in temp/ParseCNV_file.pheno correspond to loaded sample IDs.
Error: No entries in temp/ParseCNV_file.pheno correspond to loaded sample IDs.
Error: No entries in temp/ParseCNV_file.pheno correspond to loaded sample IDs.

Done Loading Input Files
6 probes with observed CNV breakpoints
Statistics Header Values=
ERROR: No P column header.

Can you help me understand why is this happening? Is this an issue regarding only the example files or is this something that might effect the elaboration on my own data?

Thank you.

Sincerely,

Linda

[Linda Maldera]

Update

I've seen that I've been running ParseCNV2.pl script, but if I run ParseCNV2_6-28-22.pl with the same command I get quite the different behaviour. 

Now the Report is being created, but it only has the header and the rest is empty. Is this behaviour correct? 

Should I be using ParseCNV2_6-28-22.pl instead of ParseCNV2?

Thank you.

Sincerely,

Linda