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See ncbi.py for adding row 0,ncbi,"ftp://ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz" (or something)
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Hi ,
while running kaiju i noticed a problem with Class and order taxonomy. See the following example
```
C k141_1685_2 169292 689 169292, WP_049377218.1, TELRRFRSDQGVKPSQKVPGRLDFA…
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Hey
I'm using Python 3.4. I get the error:
./blobtools/blobtools create --help
File "./blobtools/bloblib/create.py", line 105
print BtLog.warn_d['0']
^
SyntaxError: Miss…
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I have attempted to build and use the `makedb.sh -e` kaiju database. It has failed with the following output:
`$ ls -l ~/kaijudb_e/kaijudb_e/`
total 167947636
-rw-rw-r-- 1 ubuntu ubuntu 334204908…
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I'm on a system using `wget` version `1.12`. Running makeDB.sh on a system with a version of `wget` older than `1.16` causes the makeDB.sh script to fail. A suggested work around is found here:
http:…
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has any come across this error so far? both my input_sequence file and seqid2taxa.map files has this id, centrifuge-build is still spitting this error out..
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I am unable to build a database. Here is the error I am getting:
```
install_slam.sh database_dir bacteria viruses
Downloading RefSeq taxonomy
--2016-07-15 11:25:08-- ftp://ftp.ncbi.nih.gov/pub/taxo…
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from ktym-san:
NCBI taxdump to OWL
https://github.com/dbcls/rdfsummit/blob/master/taxdump2owl/taxdump2owl.rb
DDBJ web site hosting the above ontology
http://tga.nig.ac.jp/ontologies/
(should be moved…
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```
The tables are available from the NCBI in the gencode.dmp file that is in
the taxdump.tar.gz file.
ftp://ftp.ncbi.nih.gov/pub/taxonomy/taxdump.tar.gz
gencode.dmp
-----------
Genetic codes file, …
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Hi Dom,
I put my data into blobtools and generated a plot. However, using the blobtools view option the output json file only has no-hit taxonomy matches. I'm not sure why this is happening as a blas…