NicMAlexandre

Hi Robert, I found it. Thank you! How do I run racon_test? On Sun, Sep 9, 2018 at 12:28 PM Robert Vaser wrote: > It should be created in bin/...

When I try to run it I get 'command not found'.

Hi Robert, I got the test to run and here is my output: Running main() from gtest_main.cc [==========] Running 15 tests from 2 test cases. [----------] Global test environment set-up....

I wonder if the problem could simply have just been because the previous command: /pylon5/mc5fqip/orca21/racon/build/bin/racon –t 20 g1_all.fastq mapped_g1_all.paf g1_all.fasta racon_g1_all.fasta did not have a '>' designating the last file...

Hi Robert, Unfortunately, no; the file outputs were empty using the following command: #!/bin/bash #SBATCH -p LM #SBATCH -t 336:00:00 #SBATCH -N 1 #SBATCH --mem=256GB /pylon5/mc5fqip/orca21/racon/build/bin/racon g1_all.fastq mapped_g1_all.paf g1_all.fasta >...

Hi Devon, I am running this now. I'll let you know what the output looks like! Just making sure, but you don't have g1_all.fasta on a separate line right?

Great! It's running, we'll see what happens. Hummingbird genome actually (1.1 Gb). I am assembling genome on canu separately, but wanted to look at a miniasm genome while that's running.

Will do! Thanks a million, Devon. On Mon, Sep 10, 2018 at 11:57 AM devonorourke wrote: > Find me on Twitter if you want to follow up: @thesciencedork > Interested...

Hi Devon, I have the following output: racon_g1_all.fasta: empty racon_g1.log: ASCII text, with CR, LF line terminators [orca21@br005 orca21]$ cat racon_g1.log [racon::Polisher::initialize] loaded target sequences [racon::Polisher::initialize] loaded sequences [racon::Polisher::initialize] loaded...

Disregard. It's still running. I will keep you updated. On Tue, Sep 11, 2018 at 10:26 AM Nicolas Alexandre wrote: > Hi Devon, > > I have the following output:...