stop with an error message if Q values are below or above thresholds

Author: frederic-mahe

man/commands/fragments/option_fastq_qmax.md

@@ -1,6 +1,7 @@
 `--fastq_qmax` *positive integer*
 : Specify the maximal quality score accepted when reading fastq
-  sequences. Reads with higher quality scores are discarded. Accepted
-  values range from 0 to 93 if the offset is 33 (see `--fastq_ascii`),
-  or range from 0 to 62 if the offset is 64. The default is 41, which
-  is usual for recent Sanger/Illumina 1.8+ files.
+  sequences. Stop with an error message if a quality scores higher
+  than the specified value is read. Accepted values range from 0 to 93
+  if the offset is 33 (see `--fastq_ascii`), or range from 0 to 62 if
+  the offset is 64. The default is 41, which is usual for recent
+  Sanger/Illumina 1.8+ files.

man/commands/fragments/option_fastq_qmin.md

@@ -1,7 +1,8 @@
 `--fastq_qmin` *positive integer*
 : Specify the minimal quality score accepted when reading fastq
-  sequences. Reads with lower quality scores are discarded. Accepted
-  values range from 0 to 93 if the offset is 33 (see `--fastq_ascii`),
-  or range from 0 to 62 if the offset is 64. The default is 0, which
-  is usual for recent Sanger/Illumina 1.8+ files. Older formats may
-  use scores between -5 and 2.
+  sequences. Stop with an error message if a quality scores lower than
+  the specified value is read. Accepted values range from 0 to 93 if
+  the offset is 33 (see `--fastq_ascii`), or range from 0 to 62 if the
+  offset is 64. The default is 0, which is usual for recent
+  Sanger/Illumina 1.8+ files. Older formats may use scores between -5
+  and 2.