Evan Staton

Hi Kristina, The format is fine and gzipped is also okay. The 'too many open files' error is a system error. In this case it may be because the program...

Hi, It looks like the program received the ABRT signal from the system, which suggests the program was killed. This means it likely ran out of memory or disk space....

I have previously worked to use megablast, but unfortunately the changes in the algorithms rendered the program of little use for this application. First, all the hits are now stored...

I think `make install` should be all that's needed other than those few core packages (build-essential, lib32z1, and ncbi-blast+). Let me know if I can help further. I would like...

Hi @abretaud and @cmonjeau, I just want to note that I haven't forgotten about this topic. There is a [Docker](https://hub.docker.com/r/sestaton/transposome/) image for Transposome now and the Dockerfile is on github...

You are correct, I was referring to parsing the comment, which contains the pair information for Illumina 1.8+ data. For example, in the record below, >HWI-ST765:123:D0TEDACXX:5:1101:2872:2088 1:N:0:ATCACG TTGTCTTCCAGATAATTCCGCTATGTTCAACAAATATGTTAGATTCAAGTTTTT the pair...

The name and comment parsing should follow the specifications now (sorry for the multiple commits). After some thought, I agreed with you on the original pull request (that is, the...

Note that the syntax `defined(@array)` previously generated warnings, but as of Perl version 5.21.6 this syntax will not compile. Here is what the `readfq.pl` (from the master branch) script produces...

I hope you were able to find a solution. Please re-open the issue if you need more help.

Hi @mmpust, This is an interesting question! In theory this could work but you would need a representative database from the taxa under investigation which could be generated _de novo_...