seqclean running options: 
seqclean transcripts.fasta -c 16
 Standard log file: seqcl_transcripts.fasta.log
 Error log file:    err_seqcl_transcripts.fasta.log
 Using 16 CPUs for cleaning
-= Rebuilding transcripts.fasta cdb index =-
2516149 entries from file transcripts.fasta were indexed in file transcripts.fasta.cidx
 Launching actual cleaning process:
 psx -p 16  -n 1000  -i transcripts.fasta -d cleaning -C '/home/shared/8TB_HDD_03/sam/gitrepos/urol-e5/timeseries_molecular/D-Apul/output/00.30-D-Apul-transcriptome-assembly-Trinity/PASA/transcripts.fasta:ANLMS100:::11:0' -c '/usr/local/src/PASApipeline/bin/seqclean.psx'
WAITING for all children to finish before starting last child!
WAITING for all children to finish!
Collecting cleaning reports

**************************************************
Sequences analyzed:   2516149
-----------------------------------
                   valid:   2516032  (66133 trimmed)
                 trashed:       117
**************************************************
----= Trashing summary =------
                by 'dust':      104
              by 'shortq':       13
------------------------------
Output file containing only valid and trimmed sequences: transcripts.fasta.clean
For trimming and trashing details see cleaning report  : transcripts.fasta.cln
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