Error while running DADA2 command!

[Soha]

I already increased my RAM and the DADA2 command began working and after three days the following error appeared!!!

Running external command line application(s). This may print messages to stdout and/or stderr.
The command(s) being run are below. These commands cannot be manually re-run as they will depend on temporary files that no longer exist.

Command: run_dada_single.R /tmp/qiime2-archive-4sgous3l/d46613bb-148c-4e30-a84a-1130b7bebbdf/data /tmp/tmpblktedsn/output.tsv.biom /tmp/tmpblktedsn 0 0 2.0 2 consensus 1.0 1 1000000

R version 3.4.1 (2017-06-30)
Loading required package: Rcpp
DADA2 R package version: 1.6.0

1. Filtering …
2. Learning Error Rates
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Not all sequences were the same length.
   Initializing error rates to maximum possible estimate.
   Sample 1 - 84165 reads in 41160 unique sequences.
   Sample 2 - 104446 reads in 45047 unique sequences.
   Sample 3 - 118355 reads in 50352 unique sequences.
   Sample 4 - 93 reads in 93 unique sequences.
   Sample 5 - 146456 reads in 71781 unique sequences.
   Sample 6 - 114063 reads in 56852 unique sequences.
   Sample 7 - 122708 reads in 57049 unique sequences.
   Sample 8 - 54054 reads in 32560 unique sequences.
   Sample 9 - 85675 reads in 45344 unique sequences.
   Sample 10 - 60017 reads in 35104 unique sequences.
   Sample 11 - 103843 reads in 42993 unique sequences.
   Sample 12 - 37480 reads in 20169 unique sequences.
   selfConsist step 2
   selfConsist step 3
   selfConsist step 4
   selfConsist step 5
   Plugin error from dada2:

An error was encountered while running DADA2 in R (return code -9), please inspect stdout and stderr to learn more.

If i increased my RAM again, the command will continue or it will begin from the first step???

[gregcaporaso]

@Soha, I’m sorry, but the analysis will have to start over again. We don’t have any sort of checkpointing implemented that allows this to pick up where a failed run left off, though we do hope to have that type of support for some analyses in the future. How much memory was previously available to this job? We generally recommend at least 16GB, though sometimes more will be required.

Also, a log file should have been created as part of this failed run. Can you include that log file in your reply?