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I'm running the program in a python 2.7 virtualenv on a cluster, and it produces initial output to STDERR that seems promising:
bedfile loaded
Starting Iteration 1
Loading Hi-C links
Finished lo…
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A medium-sized assembly just aborted during the assembly phase (twice), megahit 1.2.8; last
entries from the log file:
```
2019-08-28 20:03:55 - INFO sorting/seq_to_sdbg.cpp : 793 - Numbe…
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When running a trivial example (e.coli dataset), the GFA output mentions sequences that are not defined on the .fa files corresponding to that graph for the graphs 4, 5, and 7. I am not sure if this i…
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# Please report
- abyss-pe (ABySS) 2.2.3
- Ubuntu 16.04.6 LTS
# Build
ABySS and its dependencies (openmpi, boost, sparsehash) were installed with `conda install`. Note that conda somehow co…
ghost updated
4 years ago
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Hello, I have an error, and not sure how to prevent it, or if this is an issue with the software itself.
Using canu version 1.8 on Ubuntu 16.04.6 LTS (no virtual machine).
```
$ canu --version
…
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Hi there!
I've been working on the assembly of a highly repetitive plant genome for a while. The command I'm using is:
nice -2 nohup /ohta/joanna.rifkin/canu/Linux-amd64/bin/canu -p Rumex -d Ne…
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I recently ran Canu on a algae genome sample sequenced with nanopore technology.
After removing reads less than 1000 bp with canu I still had roughly 50X coverage of my genome. However these reads we…
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Hi,
All consensus jobs were completed successfully except 3 jobs. Rerunning the Canu script didn't solve the problem. I tried to run those 3 jobs interactively from within the 5-consensus folder us…
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I received an assertion error for rule `bcalm_catlas_input`. It started running fine, but then there were a series of `-> but not -> ...` statements printed to the screen. It then failed with an asser…
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Is there a way to know why the assembler has decided to end a contig?
There are possibly several reasons :
- no reads which will elongate the contig because it is the chromosomes end or because zer…