ngsrich error coverage

[m_elena_bioinfo]

Dear, i'm computing the coverage of a whole exome.
I run NGSrich as:

> java NGSrich evaluate -r file.bam.sorted.bam -u hg19 -a refGene.txt -t designwes.bed -o outputdir -s name

and the program returns me this error:

======================0======================
STEP 0: Checking and Validation Step

Checking Requirements: success.
Reading specified parameters: success.
Setting default values: success.
Checking the output and the temporary directory: success.

Validating the input files...
SAM File: success
Genome Annotation File: success
Target File: success
All specified input files are valid.


STEP 0 successfully completed
======================1======================
>>> STEP 1: reducing files

READS ALIGNMENT FILE:
The Header of the SAM File states, that the file is sorted. NGSrich won't sort the sam file.
GENOME ANNOTATION FILE:
refGene.txt reduced to /tmp/Sample_From_13_38_59_1380109139270/NGSrich_genome_genoma2.txt
TARGET REGIONS FILE:
/tmp/Sample_From_13_38_59_1380109139270/designwes.bed reduced to /tmp/Sample_From_13_38_59_1380109139270/NGSrich_target_genoma2.bed

STEP 1 successfully completed

======================2======================
>>> STEP 2: computing target coverage data
STEP 2 successfully completed

======================3======================
>>> STEP 3: evaluating enrichment files

Reading XML file ... ready.
Reading BED file ... ready.
Creating coverage pieplot ... ready.
Preparing coverage barplots ... ready.
Creating coverage barplots ...
Error in png(file = paste(outdir, "/plots/", samplename, "_target_coverage_", :
invalid 'width' argument
Execution halted


At the end of the program, the html file has not been created.
could you help me?

thank u

[[email protected]]

invalid 'width' argument

@ m_elena_bioinfo

I am finding the same problem while running NGSrich. No HTML output file is generating after the analysis showing the same error messages you wrote here. Did you find any solution of this problem. If you please share it will be very much helpful.

Thanks & regards,
aneek