the output file is in current directory, (and provided with no heading ./), which leads to a crash
use of cat or zcat depending on input contig file extension
Other known issue:
In file src/polish/PurgeDups.hpp the use of Utils::contigName_to_contigIndex(read._header) inside the function dumpDereplicatedContigs_read limits the tool to be used only with contigs named with a ctg prefix. An simple way to fix it would be to simply write contigName in the output file (however I do not know if it would break the main assembly tool).
Fixed two small problems for
metaMDBG derep:./), which leads to a crashcatorzcatdepending on input contig file extensionOther known issue:
src/polish/PurgeDups.hppthe use ofUtils::contigName_to_contigIndex(read._header)inside the functiondumpDereplicatedContigs_readlimits the tool to be used only with contigs named with actgprefix. An simple way to fix it would be to simply writecontigNamein the output file (however I do not know if it would break the main assembly tool).