Out of 17 assemblys CE got to this step 4 times. 12 died with the following error message:
[scr] Failed to align minimum amount of reads (10000) to reference clusters
3 of the 4 that reached that step succeded, but one died with the following error message:
[19-04-14 16:58:23] [PipeWrap] Running 'fcg': /opt/chloroExtractor/bin/find_cyclic_graph.pl --in ass/assembly_graph.fastg --blastdb /opt/chloroExtractor/bin//../data/cds.nr98.fa --out fcg.fa
perl: warning: Setting locale failed.
perl: warning: Please check that your locale settings:
LANGUAGE = "en_IE:en",
LC_ALL = (unset),
LANG = "en_DK.UTF-8"
are supported and installed on your system.
perl: warning: Falling back to the standard locale ("C").
[19-04-14 16:58:23] [fcg] Found 100 different nodes with 41455 bp total sequence length and 6 digraph information packages
[19-04-14 16:58:23] [fcg] Found 6 weakly connected components
[Sun Apr 14 16:58:23 2019] WCC: 0%
[Sun Apr 14 16:58:23 2019] WCC: 0%
[Sun Apr 14 16:58:23 2019] WCC: 16%
[Sun Apr 14 16:58:23 2019] WCC: 33%
[Sun Apr 14 16:58:23 2019] WCC: 50%
[Sun Apr 14 16:58:23 2019] WCC: 66%
[Sun Apr 14 16:58:23 2019] WCC: 83%
[Sun Apr 14 16:58:23 2019] WCC: 100%
[19-04-14 16:58:23] [fcg] No single circular chloroplast was found. Searching for partial hits...
Warning: [tblastx] Query is Empty!
[19-04-14 16:58:23] [fcg] Found 0 partial chloroplast sequences
Out of 17 assemblys CE got to this step 4 times. 12 died with the following error message:
[scr] Failed to align minimum amount of reads (10000) to reference clusters3 of the 4 that reached that step succeded, but one died with the following error message: