Error during "Calculate bin phylogeny" step

[Ilnam Kang]

Hello,

I installed and runned MetaWatt for the first time today. Every step (module?) seems to be working properly, except for "Calculate bin phylogeny".

Below is the excerpt of the log file:

Metawatt [INFO|2:27:32] Running "Calculate bin phylogeny"...
Metawatt [INFO|2:27:32] Minimum profile extent for treeing [25%]
Metawatt [INFO|2:27:32] Set processors used [12]
Metawatt [INFO|2:27:32] Set temp folder [/tmp/metawatt]
Metawatt [INFO|2:27:32] Creating bin phylogentic trees from detected profile genes...
Metawatt [INFO|2:27:32] (1/2) conserved-genes.hmm...
Metawatt [INFO|2:27:32] Filtering reference sequences for redundancy...
Metawatt [INFO|2:27:33] Profile "B5" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:34] Profile "CoaE" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:34] Profile "Competence" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:35] Profile "Cons_hypoth95" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:36] Profile "CTP_synth_N" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:36] Profile "Cytidylate_kin" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:37] Profile "DNA_pol3_beta" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:37] Profile "DNA_pol3_beta_2" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:38] Profile "DNA_pol3_beta_3" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:27:39] Profile "dsrm" is redundant with "Arg_tRNA_synt_N".
(.......)
Metawatt [INFO|2:28:49] Profile "UvrC_HhH_N" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:28:50] Profile "Val_tRNA-synt_C" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:28:51] Profile "YchF-GTPase_C" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:28:51] Profile "zf-C4_ClpX" is redundant with "Arg_tRNA_synt_N".
Metawatt [INFO|2:28:51] Selected 2021/2021 reference taxa for alignment.
Metawatt [INFO|2:28:51] Selected 84/347 bins for alignment.
Metawatt [INFO|2:28:51] Initiating alignment...
Metawatt [INFO|2:28:51] (1/138) Arg_tRNA_synt_N ....
Metawatt [INFO|2:28:51] Writing combined reference and detected gene sequences to "/tmp/metawatt/conserved-genes.fasta/Arg_tRNA_synt_N"...
Metawatt [INFO|2:28:52] mafft /tmp/metawatt/conserved-genes.fasta/Arg_tRNA_synt_N

MetaWatt had been stuck at this step >6 hours and I had to skip this module.
What went wrong? How can I solve this problem?
(There is no problem in dependency check. Mafft is recognized properly by MetaWatt.)

Thanks in advance.

[Yevhen Vainshtein]

Hello,

have exactly the same problem. I am runnig the MetaWatt on a multi-core system with sufficient memory. I cheched - the single mafft module disttbfast is running on a single core, while 128 is available. The module is using currently about 360GB of RAM and for a moment running for 20 hours.

Does anybody solved the problem?

Thanks.

[ashone]

Hello,
I have the same problem.Does anyone know how to solve it ?
Thanks.