hi all,
I’m having an issue where the temp files being split from my fasta file can’t be read:
mothur >
cluster.split(fasta=pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta, count=pingo.trim.contigs.unique.good.pick.filter.unique.precluster.count_table, taxonomy=pingo.trim.contigs.unique.good.pick.filter.unique.precluster.nr_v123.wang.taxonomy, splitmethod=classify, taxlevel=5, cutoff=0.03, processors=6)
Using 6 processors.
Using splitmethod fasta.
Splitting the file…
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.507.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.508.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.509.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.510.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.511.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.512.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.513.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.514.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.515.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.516.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.517.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.518.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.519.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.520.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.521.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.522.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.523.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.524.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.525.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.526.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.527.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.528.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.529.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.530.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.531.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.532.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.533.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.534.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.535.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.536.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.537.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.538.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.539.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.540.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.541.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.542.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.543.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.544.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.545.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.546.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.547.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.548.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.549.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.550.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.551.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.552.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.553.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.554.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.555.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.556.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.557.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.558.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.559.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.560.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.561.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.562.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.563.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.564.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.565.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.566.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.567.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.568.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.569.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.570.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.571.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.572.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.573.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.574.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.575.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.576.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.577.temp
[ERROR]: Could not open pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.578.temp
/******************************************/
Running command: dist.seqs(fasta=pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.0.temp, processors=6, cutoff=0.035)
Using 6 processors.
/******************************************/
Output File Names:
pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.0.dist
It took 623 seconds to calculate the distances for 23000 sequences.
/******************************************/
Running command: dist.seqs(fasta=pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.1.temp, processors=6, cutoff=0.035)
Using 6 processors.
/******************************************/
Output File Names:
pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.1.dist
It took 891 seconds to calculate the distances for 28198 sequences.
/******************************************/
Running command: dist.seqs(fasta=pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.2.temp, processors=6, cutoff=0.035)
Using 6 processors.
/******************************************/
Output File Names:
pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.2.dist
It took 124 seconds to calculate the distances for 10511 sequences.
/******************************************/
Running command: dist.seqs(fasta=pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.3.temp, processors=6, cutoff=0.035)
Using 6 processors.
/******************************************/
Output File Names:
pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.3.dist
It took 152 seconds to calculate the distances for 10886 sequences.
/******************************************/
Running command: dist.seqs(fasta=pingo.trim.contigs.unique.good.pick.filter.unique.precluster.fasta.4.temp, processors=6, cutoff=0.035)
Using 6 processors.
/******************************************/
moral of the story it's spitting out .dist files as expected, but it can't read or open a bunch of the files that it split itself.