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boutroslab / CRISPRAnalyzeR

CRISPRAnalyzeR: interactive analysis, annotation and documentation of pooled CRISPR screens
GNU General Public License v2.0
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fileBegin error loading fastq.gz #13

Closed cstubben closed 7 years ago

cstubben commented 7 years ago

I just ran docker run --rm -p 80:3838 boutroslab/crispranalyzer:latest and tried to upload one fastq.gz file and it seems to load once, starts over and then returns ERROR: fileBegin called too many times. Here's part of my fastq...

gunzip -c 13880X1.fastq.gz | head
@HWI-D00550:408:CAPWNANXX:7:1101:1156:2099 1:N:0:
TAAGTAGAGTCTTGTGGAAAGGACGAAACACCGATGCTGTCCAGCAACTN
+
CCCCCGGGGE>FEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG#
@HWI-D00550:408:CAPWNANXX:7:1101:1010:2100 1:N:0:
NAAGTAGAGTCTTGTGGAAAGGACGAAACACCGGCCCATCAGANTTCCGN
+
#3=AB=C1CFGGG>FGGGGGGGGGGGGGGGGGG@G/E/1=C:1#:0=EF#
@HWI-D00550:408:CAPWNANXX:7:1101:1123:2103 1:N:0:
TAAGTAGAGTCTTGTGGAAAGGACGAAACACCGGGGAAGTCCTCCAAATN
jwinter6 commented 7 years ago

Hi, thanks for this hint. As far as I know this is a HTML5-based issue. HTML5 is used for file uploading in chunks, and if there is something going wrong this might come up. I will look for a work-around but it might be that is is not in my hands.

May I ask how large the fastq.gz file was? Could you try it again please using the beta version via docker run --rm -p 80:3838 boutroslab/crispranalyzer:1.11BETA

Thanks for your help Jan

jwinter6 commented 7 years ago

closed due to inactivity, so I guess the issue is gone with the latest 1.11 release. Will be reopened if required.