Removing niceload.

libworkflows/libworkflows.py

@@ -54,12 +54,14 @@ count_fastq_reads()
 
 sort_by_seq()
 {{
-    niceload --mem 10000M fastq-sort -s || error_exit "fastq-sort failed"
+    # niceload --mem 10000M fastq-sort -s || error_exit "fastq-sort failed"
+    fastq-sort -s || error_exit "fastq-sort failed"
 }}
 
 dedup()
 {{
-    sort_by_seq | niceload --mem 10000M remove-duplicates-from-sorted-fastq \\
+    # sort_by_seq | niceload --mem 10000M remove-duplicates-from-sorted-fastq \\
+    sort_by_seq | remove-duplicates-from-sorted-fastq \\
         || error_exit "remove_duplicates_from_sorted_fastq failed"
 }}
 
@@ -67,7 +69,8 @@ trim_random_nt()
 {{
     # $1: nb of bases to trim at 5' end
     # $2: nb of bases to trim at 3' end
-    niceload --noswap -q cutadapt -u ${{1}} -u -${{2}} - 2> /dev/null \\
+    # niceload --noswap -q cutadapt -u ${{1}} -u -${{2}} - 2> /dev/null \\
+    cutadapt -u ${{1}} -u -${{2}} - 2> /dev/null \\
         || error_exit "trim_random_nt failed"
 }}