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I would like to install GATB and use it as a library.
How can I specify the install prefix please?
The prefix is ignored when specified as follows:
```
cmake --DCMAKE_INSTALL_PREFIX="/custom/pr…
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I'm currently using jellyfish to count K-mers in assembled genomes.
I'm able to count 5, 6 and 10-20 mers without any problem, but for some reason the program creates hundreds of small subfiles wh…
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At line 31 of [GATB Tutorial lesson 2: iterate over the nodes of a De Bruijn graph](http://gatb-core.gforge.inria.fr/training/gatb-compiler.html?snippet=debruijn6) an iterator over the nodes in a grap…
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issue with
```
NameError: name Bank not defined"
```
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Hi guys,
I was wondering if you could point me to an example of how to implement depth-first search on a GATB de Bruijn graph? I see in the snippets there is an implementation for BFS but I need DF…
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Hello,
I was running setup.py and an error raised in test_graph.py, any advices ? Below the result from setup.py :
~/pyGATB/build$ python3 setup.py test
running pytest
Searching for pytest
…
WesDe updated
6 years ago
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Hi,
I ran into some problems, when trying to build Gap2Seq 3.1, so during make I got following error:
../thirdparty/htslib/libhts.a(cram_io.o): In function `lzma_mem_deflate':
/home/schusterbau…
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As an example fastq2fasta has a method GATB which needs gatb.Bank. If you don't have the dependency on your machin, using this method will fail. Why couldn't we remove this method from the proposed me…
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in spacegraphcats, we are consuming the output of your excellent tool and doing (or attempting to do) Clever Graph Things with it. (thank you for bcalm!) however, we are running into a problem that in…
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Is it possible to export the assembly graph in GFA format?