Hello,
I am having an issue with the pretty print function in SHRiMP 2.2.2.
I have several scripts for working through the pipeline (that work for 2.1.1b).
With 2.2.2, I use gmapper-cs, then some filtering, then use probcalc, and finally I want to use prettyprint-cs. However, I get this error:
I make sure to use the --shrimp-format flag for gmapper-cs. Anyone have any insights here? If I run gmapper with the -p flag it WILL prettyprint (but I need to do some more filtering before this step).
Appreciate it.
I am having an issue with the pretty print function in SHRiMP 2.2.2.
I have several scripts for working through the pipeline (that work for 2.1.1b).
With 2.2.2, I use gmapper-cs, then some filtering, then use probcalc, and finally I want to use prettyprint-cs. However, I get this error:
Code:
Loading shrimp output file... Loaded 11537 alignments from shrimp output (11537 unique reads) Loading read file(s)... Loaded 11537 colourspace reads in 1 file(s) (415332 total bases) Loading genome contig file(s)... warning: score differs from input file (read="862_925_542", genome="Bd1_100805_100840_F") Most likely cause is that prettyprint does not use anchors. *** glibc detected *** double free or corruption (out): 0x000000000970fc80 *** /share/sge6.2/execd_spool//i182-110/job_scripts/2376614: line 11: 1506 Aborted
Appreciate it.
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