User: Eichan

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Eichan0
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Japan/Tokyo
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Posts by Eichan

<prev • 8 results • page 1 of 1 • next >
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Answer: A: error running presplit_map.py
... Hi! I tested and it ran perfectly with all data. It took a little longer than I was expecting but very nice! Alignment was higher than BWA mem. presplit_map.py is working well after changes suggested by Aaron Lun :   Copy presplit_map.py to your local directory (to avoid changing the install ...
written 4 weeks ago by Eichan0
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Comment: C: error running presplit_map.py
... Sorry, this error was caused because an interruption of the job here. I ran using qsub and seems like it is working well so far. As soon as I get results from alignment I report here again. ...
written 5 weeks ago by Eichan0
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Comment: C: error running presplit_map.py
... Ops,  another error...   Traceback (most recent call last):   File "presplit_map.py", line 140, in <module>     raise SystemError, "bowtie2 failed for presplit alignment"   My bowtie2 version is 2.3.3.1.  ...
written 5 weeks ago by Eichan0
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Comment: C: error running presplit_map.py
... Thank you very much Aaron, it worked perfectly now!! P.S. there's an extra parenthesis in the end ;) ...
written 5 weeks ago by Eichan0
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Comment: C: error running presplit_map.py
... Thank you for the advice, I'm very new in this kind of forum, sorry for any mistake. So, I've done the suggested changes, but got another errors:  python presplit_map.py     -G /home/nagailae/database/mm10/bowtie2_idx/mm10     -1 SRR_1.fastq     -2 SRR_2.fastq     --sig AAGCTAGCTT     -o SRR.bam [ ...
written 5 weeks ago by Eichan0
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Answer: A: error running presplit_map.py
... Dear Aaron,   I followed your recommendation and after trying several times running without success I uninstalled pysam, created a Python2 environment with conda, installed again the pysam 0.12.0.1 and then ran it again. Unfortunately, I got the same error as previously. I really don't know what' ...
written 5 weeks ago by Eichan0
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Answer: A: error running presplit_map.py
... May I ask you which version of Python I should use for it?  ...
written 5 weeks ago by Eichan0
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error running presplit_map.py
... Hi, May I ask a naive question on what could be wrong when I try to run the chimeric alignment using presplit_map.py from diffHic package. It seems an error from samtools but I couldn't figure out what causes it. I updated my samtools version from 1.31 to 1.6 and I still having the same problem. I ...
diffhic written 5 weeks ago by Eichan0

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