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chloroExtractorTeam / chloroExtractor

MIT License
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Is -o option of ptx used at all? #55

Closed iimog closed 7 years ago

iimog commented 7 years ago

The synopsis of ptx is as follows:

$ ./ptx [<OPTIONS>] -1 <FQ_1> -2 <FQ_2> -o <ID>

However, -o seems to be unused as the files are not named that way and neither is it used for the id in the final fasta file. Also the -d option seems to default to the current directory and not "ptx" as the --help text implies. So for the synopsis -d would be much more important than -o

PfaffS commented 7 years ago

I looked into it and I couldn't find anything why -d is still on the current dir, the last commit on ptx was from thomas which should set the standart dir to ptx. We did not change anything on ptx but we also never testet wether the standart dir is ptx 'cause I always named my dirs. I also found nothing on the -o issue sry, it should be in an hashref and should used, i don't know why it isn't.

greatfireball commented 7 years ago

Identified the problem and fixed it