", line 2, in summarize
File "/home/npdf/anaconda2/envs/qiime2-2018.11/lib/python3.5/site-packages/qiime2/sdk/action.py", line 231, in bound\_callable
output\_types, provenance)
File "/home/npdf/anaconda2/envs/qiime2-2018.11/lib/python3.5/site-packages/qiime2/sdk/action.py", line 424, in _callable\_executor_
ret\_val = self.\_callable(output\_dir=temp\_dir, \*\*view\_args)
File "/home/npdf/anaconda2/envs/qiime2-2018.11/lib/python3.5/site-packages/q2\_demux/\_summarize/\_visualizer.py", line 131, in summarize
for seq in \_read\_fastq\_seqs(file):
File "/home/npdf/anaconda2/envs/qiime2-2018.11/lib/python3.5/site-packages/q2\_demux/\_demux.py", line 34, in \_read\_fastq\_seqs
for seq\_header, seq, qual\_header, qual in itertools.zip\_longest(\*[fh] \* 4):
File "/home/npdf/anaconda2/envs/qiime2-2018.11/lib/python3.5/gzip.py", line 287, in read1
return self.\_buffer.read1(size)
File "/home/npdf/anaconda2/envs/qiime2-2018.11/lib/python3.5/\_compression.py", line 68, in readinto
data = self.read(len(byte\_view))
File "/home/npdf/anaconda2/envs/qiime2-2018.11/lib/python3.5/gzip.py", line 452, in read
self.\_read\_eof()
File "/home/npdf/anaconda2/envs/qiime2-2018.11/lib/python3.5/gzip.py", line 499, in \_read\_eof
hex(self.\_crc)))
OSError: CRC check failed 0x2a1edf4e != 0x214264ab
Plugin error from demux:
CRC check failed 0x2a1edf4e != 0x214264ab
See above for debug info.
Segmentation fault (core dumped)
---
### Author:  [@Nicholas\_Bokulich](https://forum.qiime2.org/u/Nicholas_Bokulich)
#### Post date: [December 17, 2018, 4:06pm UTC](https://forum.qiime2.org/t/demux-summarize-and-dada2-error/7475/2 "2018-12-17T16:06:47Z")
Overall, it sounds like your hard disk may be running out of space while running these commands. Make sure you have adequate hard disk space, particularly in your tmp directory.
Can you provide some details about the disks, partitioning, and where you mapped tmp to?
For your dada2 error, see the topics here for some instructions for diagnosing and debugging:
> [@Dada2 segfault in 2018.2 and 2017.12 (Mac OS X 10.13)](https://forum.qiime2.org/t/dada2-segfault-in-2018-2-and-2017-12-mac-os-x-10-13/3441):
>
> I've installed Qiime2 2018.2 (2018.2.0, with dada2 version 2018.2.0) in its own conda environment following the official instructions. I am getting a segfault when Qiime tries to load the dada2 R package. I came across the problem while trying to run qiime dada2 denoise-paired, but all I need to do to trigger the error is activate the conda environment, open an R session, and execute library(dada2). The error message is: Loading required package: Rcpp \*\*\* caught segfault \*\*\* address 0x1310, c…
> [@DADA2 (2017-12) segfault, memory not mapped error](https://forum.qiime2.org/t/dada2-2017-12-segfault-memory-not-mapped-error/2363):
>
> Hi again, sorry to bother you all! Hope your holidays are going well. I'm still trying to run DADA2 on my 53 unjoined, paired-end fastq files. The code I used is below. I added a --p-n-threads option to help with the processing speed: $ qiime dada2 denoise-paired --i-demultiplexed-seqs demux-paired-end.qza --p-trim-left-f 0 --p-trunc-len-f 270 --p-trim-left-r 0 --p-trunc-len-r 120 --o-representative-sequences rep-seqs.qza --p-n-threads 0 --o-table table-dada2.qza It came out with an error: R…
> [@Error while running DADA2 command?](https://forum.qiime2.org/t/error-while-running-dada2-command/3316/3):
>
> Hi @Soha, It's been a while since we've seen the dreaded [0x8 error](https://forum.qiime2.org/search?q=0x8%20memory%20not%20mapped). I notice you are running 2017.12 which had an early release with this issue. Could you provide the results of qiime info? You may just need to update to the latest QIIME 2 (in fact I would recommend that in either case!) Otherwise, do you have an RStudio installation alongside QIIME 2 (or any other installation of R)? The library paths are known to conflict with each other causing this issue as well. In that case use: echo "…
If none of that helps, please provide the system information requested of others in those topic threads.
> [@Chandrashekar\_M](#):
>
> Segmentation fault (core dumped)
Sounds like a partition on your hard disk is running out of space.
---
### Author:  [@Chandrashekar\_M](https://forum.qiime2.org/u/Chandrashekar_M)
#### Post date: [December 22, 2018, 3:11pm UTC](https://forum.qiime2.org/t/demux-summarize-and-dada2-error/7475/4 "2018-12-22T15:11:01Z")
Dear Nicholas,
Thank you for the response, yes the system configuration was the one hindering and we have changed the system and the command has been running for past 4 days now. Hope that will work now in that as the other demux-summarize error was sorted.
Also, it seems training the Classifier (SILVA database for V3-V4) would be again a memory requiring step, could you suggest if it work in 8Gb ram? also, are there pre-trained classifier for SILVA region mentioned available, I could find a Greengenes classifier from previous forum discussions, but not SILVA.
Thanks again.
---
### Author:  [@Nicholas\_Bokulich](https://forum.qiime2.org/u/Nicholas_Bokulich)
#### Post date: [December 27, 2018, 10:20pm UTC](https://forum.qiime2.org/t/demux-summarize-and-dada2-error/7475/5 "2018-12-27T22:20:40Z")
> [@Chandrashekar\_M](#):
>
> Thank you for the response, yes the system configuration was the one hindering and we have changed the system and the command has been running for past 4 days now. Hope that will work now in that as the other demux-summarize error was sorted.
Glad to hear it — did the job ever complete? If not, look at the demultiplexed seqs you are using as input; the file may be empty.
> [@Chandrashekar\_M](#):
>
> Also, it seems training the Classifier (SILVA database for V3-V4) would be again a memory requiring step, could you suggest if it work in 8Gb ram? also, are there pre-trained classifier for SILVA region mentioned available, I could find a Greengenes classifier from previous forum discussions, but not SILVA.
Yes, classification is memory-intensive. The greengenes classifier will take much less RAM than SILVA and 8GB would be fine. For SILVA you should probably have more memory but you can adjust the batch size to reduce memory demand (see other posts on this forum for more advice regarding memory issues with SILVA). We have pre-trained Naive Bayes classifiers for SILVA and greengenes database here:
[https://docs.qiime2.org/2018.11/data-resources/](https://docs.qiime2.org/2018.11/data-resources/)
---
### Author:  [@system](https://forum.qiime2.org/u/system)
#### Post date: [January 28, 2019, 4:20am UTC](https://forum.qiime2.org/t/demux-summarize-and-dada2-error/7475/6 "2019-01-28T04:20:41Z")
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