Could not write to file 'stream'

Hi Simon,

I've been getting the same bug multiple times on different samples that "(GEM) could not write to file 'stream'".

GEM::FatalError (fm.c:686,fm_write_mem)
 Could not write to file 'stream'
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GEM::Unexpected error occurred. Sorry for the inconvenience
     Feedback and bug reporting it's highly appreciated,
     => Please report or email (gem.mapper.dev@gmail.com)
GEM::Running-Thread (threadID = 3)
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GEM::Version v3.6.0-bundle-release
GEM::CMD gem-mapper -I ../../reference/GENCODE/gembs-index/h38_no_alt.BS.gem --threads 4 --report-file ../data/pool11/329.json --i1 ../data/pool11/329_R1.fastq.gz --i2 ../data/pool11/329_R2.fastq.gz -o ../data/pool11/329.unsorted.sam
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GEM::Input.State
Sequence (File '../data/pool11/329_R1.fastq.gz' Line '361429')
@A00835:363:HVVFKDSX2:1:2632:18927:33051/1
TTTTTTTAGGAGAGTTTATTTTATATTTTTTTATATAATTAGGTAATTAATGTTATTAGAAGGTTAGGATATTTGGAATGGTTTAGAGTTTATTTGGGAATTGTGAAATATTTTGTTTTTTGTAGGAGATAAGGTATGTAATTCGATAAT
+
FFFF:FF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:F:FFFF,FFFFFFFFFFFFFF:FFFFFF:FFFF:FFFFFFFFFFFFF:FFFFFFFFFF:,FFFFFFFFFFFFFFFFFFF
GEM::Input.State
Sequence (File '../data/pool11/329_R2.fastq.gz' Line '40036')
@A00835:363:HVVFKDSX2:1:2632:18927:33051/2
CTTATATATCTTTTTCCTTTACTCAAAACAAAACAATTTTTAACACACTAAAAAAAAAAAAAAACCAAATATTTTATACCTTTCTAAAACAACACTATATCCCAAACTACATTTTAAAACTTAATATAAAAATACCAAAATCTAAACACC
+
FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFF:FFFFF:FFFFF:FFFF,:,FFF:FFFF,,F,F,FFF,FF,FF:F,FFF:FF,:FFFF:,,FFFF:,:F,FF,,,F:FF,,,:F

Do you have any suggestions or advice on how to proceed? Thanks!

-Coleman

smarco / gem3-mapper

Could not write to file 'stream' #33