Lositan: problems reading genepop files

Question

[baumsib]

Hello,

I have installed lositan on Windows (Windows 7, Java vers 8, 64-bit) and the example file runs fine. However, when I load my genepop file I get the following error in Java:

Exception in thread "AWT-EventQueue-2" Traceback (most recent call last):
  File ".lositan\Main.py", line 853, in actionPerformed
    chooseFile()
  File ".lositan\Main.py", line 192, in chooseFile
    updateAll()
  File "\.lositan\Main.py", line 101, in updateAll
    selRec2.remove_loci_by_name(remLoci, lpath + os.sep + "sr.tmp")
  File "\.lositan\Bio\PopGen\GenePop\FileParser.py", line 337, in remove_loci_by_name
    self.remove_loci_by_position(positions, fname)
  File "\.lositan\Bio\PopGen\GenePop\FileParser.py", line 311, in remove_loci_by_position
    l_parser = old_rec.get_individual()
  File "\.lositan\Bio\PopGen\GenePop\FileParser.py", line 183, in get_individual
    indiv_name, allele_list, ignore = get_indiv(line)
  File "\.lositan\Bio\PopGen\GenePop\__init__.py", line 31, in get_indiv
    indiv_name, marker_line = line.split(',')
ValueError: need more than 1 value to unpack

I have tested the genepop file in "genepop on the web" and it runs there without issue. Any ideas what causes this and how to fix it?

Thanks!

Answer 1

[baumsib]

Hello,

I found the issue - the individual names were too long. I replaced names of individuals with "Ind1 ... Ind100" and now the file reads fine.