Hello
I am using version 1.19.3. As I work my way through the Costello tutorial, I do not generate the appropriate two output files (stool.trim.unique.good.slayer.chimeras and stool.trim.unique.good.slayer.accnos) after I run the chimera.slayer command. This is the third time I have run through the tutorial from the beginning, and I even allowed it to run overnight but I get the same sort of output files.
A series of files:
mothur.1306938334.logfile
stool.trim.unique.good.slayer.chimera545.temp
stool.trim.unique.good.slayer.accnos545.temp
stool.trim.unique.good.slayer.chimeras.tempHeader
stool.trim.unique.good.slayer.chimera545.num.temp
stool.trim.unique.good.slayer.chimera547.temp
stool.trim.unique.good.slayer.chimera546.temp
stool.trim.unique.good.slayer.chimera544.temp
stool.trim.unique.good.slayer.accnos547.temp
stool.trim.unique.good.slayer.accnos546.temp
stool.trim.unique.good.slayer.accnos544.temp
stool.trim.unique.good.1249838022.template.unaligned.fasta.nsq
stool.trim.unique.good.1249838022.template.unaligned.fasta.nsi
stool.trim.unique.good.1249838022.template.unaligned.fasta.nsd
stool.trim.unique.good.1249838022.template.unaligned.fasta.nin
stool.trim.unique.good.1249838022.template.unaligned.fasta.nhr
Most of the “.slayer.chimera500.temp” files are empty and all of the files ending in “fasta.ns” are all gibberish.
The output on the terminal screen always ends like this:
F31Fcsw_164833 yes
F24Fcsw_118446 yes
M43Fcsw_93637 yes
F33Fcsw_151211 yes
F21Fcsw_22770 yes
F14Fcsw_72585 yes
F14Fcsw_32644 yes
Processing sequence: 4000
M24Fcsw_50948 yes
F22Fcsw_401991 yes
Processing sequence: 4014
I let the computer sit there overnight thinking that it was running something but it stayed like this and never generated the two output files.
Any help would be greatly appreciated.
Thanks.