psg_infer_frequencies.py - invalid literal for float()

[Ilyushenok Ilya]

Hello.

I try to run psg_infer_frequencies.py in my laptop with small set of paired-end reads (Ubuntu 14.04, Python 2.7.3, Java 1.7.0, Bowtie 1.0.0). When Bowtie alignment complete, I have next error: 

Error: AlignPaired failed on gene 1 with message: invalid literal for float(): -517533,237. 

This is the full log:

$ psg_infer_frequencies.py --frag-mean 222 --frag-stddev 101 psg_output sr38-40_output 1_SR38-40.fastq 2_SR38-40.fastq

Using 4 cores

Reference reading time: 0 seconds

bowtie --best --strata -p 4 -l 25 -a -m 200 psg_output/references 1_SR38-40.fastq 2> sr38-40_output/alignment1.bowtie.gz.log | sort -k3,3n -t' ' -T /tmp/psginfer-sr38-40_output-gQvd2p | gzip -c > sr38-40_output/alignment1.bowtie.gz

Mate 1 alignment time: 3 seconds

bowtie --best --strata -p 4 -l 25 -a -m 200 psg_output/references 2_SR38-40.fastq 2> sr38-40_output/alignment2.bowtie.gz.log | sort -k3,3n -t' ' -T /tmp/psginfer-sr38-40_output-gQvd2p | gzip -c > sr38-40_output/alignment2.bowtie.gz

Mate 2 alignment time: 3 seconds

Total alignment time: 6 seconds

java -cp /home/ilya/bioinf_soft/PSGInfer/psginfer-1.2.1/LearnPSG -XX:+UseSerialGC AlignPaired /tmp/psginfer-sr38-40_output-gQvd2p/1.psg /tmp/psginfer-sr38-40_output-gQvd2p/1.1.align /tmp/psginfer-sr38-40_output-gQvd2p/1.2.align 100 222 101.0 1 > /tmp/psginfer-sr38-40_output-gQvd2p/1.em.out 2> /tmp/psginfer-sr38-40_output-gQvd2p/1.em.out.log

Error: AlignPaired failed on gene 1 with message: invalid literal for float(): -517533,237

Estimation time: 324 seconds

Total time: 327 seconds

I'm really interested in this program for my work, so I'll be grateful for any help. Thanks in advance!