ValueError: too many values to unpack about metator HOT 11 CLOSED

Hello, I modified the incriminating line (network.py:810):

my_assembly, =

with

my_assembly, _ =

did that fix your issue?

from metator.

from metator.

Thanks for the heads-up, I updated the link. Does it work better now?

from metator.

I could download it yes. However, the filename isn't the same and it decompress in a dir called "hmm_databases" where default hmm directory location expects "modele_HMM"

from metator.

I'll update the default hmm directory name. Does it work seamlessly if you just run

./meta3c.sh dependencies 

though? And in the meantime you can rename the directory and proceed to the rest of the pipeline.

from metator.

that's what I've been doing but I'm waiting for the partitioning step to end though

I'll then clone the updated metaTOR git directory and try running it to see if all is working as intended. I've already resumed some runs by just copying the "output" directory and using the same project name with -p
I guess this would still work for annotation step ?

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hum, (with previous git version):

./meta3c.sh partition -p 5KB.metaTOR.1
ends with:
Resolving partitions... paste: /mibi/users/jnesme/Bin/metaTOR/output/5KB.metaTOR.1/partition/iteration/1.community : No such file or directory

but the file exists and is non empty ?:
head /mibi/users/jnesme/Bin/metaTOR/output/5KB.metaTOR.1/partition/iteration/1.community
0
1
2
3
4
5
6
7
8
9

about the current release:

meta3c.sh dependencies ends now with:

`
hmm_databases.tgz 100%[==============================================>] 48.45M 1.90MB/s in 29s

2018-10-24 19:15:18 (1.66 MB/s) - ‘hmm_databases.tgz’ saved [50804980/50804980]

hmm_databases/
hmm_databases/conj.hmm
hmm_databases/essential.hmm
hmm_databases/pog.hmm
hmm_databases/SGC.hmm
hmm_databases/VOG.hmm
mv: cannot move ‘hmm_databases’ to ‘’: No such file or directory
OK
`

also, louvain should be put in a directory named "tools" (and also run make in louvain).

I'm now running ./meta3c.sh partition with current version. Let's see what happens.
Edit: still ends with the same error

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Could you upload your config_current.sh file? I seem to have trouble reproducing your issues. Also did you check you had all write/read/etc. access in the directory in question?

Cheers

from metator.

here it is, with ".txt" extension added so i could upload here.
config_current.sh.txt

from metator.

Could you try again with this new commit? I simply unquoted the incriminating expression:

paste "$(printf "${partition_dir}/iteration/%s.community " $(seq 1 "$repet"))" >"${tmp_dir}"/"${project}"_iterations_"${repet}".txt

into:

paste $(printf "${partition_dir}/iteration/%s.community " $(seq 1 "$repet")) >"${tmp_dir}"/"${project}"_iterations_"${repet}".txt

Cheers

from metator.

With the last few weeks' overhaul, this bug is probably unlikely to resurface again so I'm going to close this for now.

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