EMBL-PKU BASALT issues - Githubissues

EMBL-PKU / BASALT

MIT License

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issues

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how to make a binning with these samples?

#59 guangingmai opened 3 days ago
0
The test data I ran myself was different from the data provided

#58 guangingmai opened 4 days ago
0
Running without binning

#57 AprilJauhal opened 3 weeks ago
0
results different from yours

#56 dsfchina opened 1 month ago
0
If I follow the tutorial, v1.0.1 is installed, not v1.1.0.

#55 HirokiK0 opened 1 month ago
3
UnboundLocalError: local variable 'level_num' referenced before assignment

#54 haihao999 opened 1 month ago
0
BASALT is stuck in the middle

#53 shashank-KU opened 2 months ago
1
Abnormal Exit in step 8

#52 f12345zxcvbnm2 opened 2 months ago
1
"1_DRRcontigs.fasta" does not exist or is not a Bowtie 2 index

#51 Juzishh closed 1 month ago
2
Didn‘t Get The Binning Result

#50 Flooooooooooooower opened 2 months ago
1
Almost 1/3 of the obtained bins from BASALT were removed by dRep dereplicate -sa 0.99.

#49 zzz199125 opened 3 months ago
0
Question: Any plans to make the tool available at Biocontainers?

#48 erikrikarddaniel opened 3 months ago
2
sh: Cytoscapeviz.pl: command not found

#47 jiangyoufeng opened 3 months ago
1
empty fasta file:'Remapping.fasta'; local variable 'bam_sorted' referenced before assignment

#46 FengqingWang0712 opened 4 months ago
4
FileNotFoundError: [Errno 2] No such file or directory: 'clustering_gt1000.csv'

#45 tenguzame opened 4 months ago
0
Issue about LRS binning

#44 AlenaYoung opened 4 months ago
1
Date of update to v1.1.0 in conda?

#43 zhaoze2020 opened 4 months ago
3
FileNotFoundError: [Errno 2] No such file or directory: 'Predicted_potential_outlier.txt'

#42 Songq-20 opened 4 months ago
2
VAMB and BASALT

#41 vicru93 closed 4 months ago
2
The error while BASALT installed with "conda env create -n BASALT --file basalt_env.yml"

#40 ggezwp123 opened 5 months ago
3
Bug shows "FileNotFoundError: [Errno 2] No such file or directory: 'BestBinset_outlier_refined_filtrated_retrieved_checkm/storage/'"

#39 1023011930 opened 5 months ago
7
Output Basalt

#38 vicru93 closed 5 months ago
2
3rd bin selection did not perform, because there is only one assembly!

#37 Enewmoon opened 5 months ago
5
Is it normal to stay at this step for a long time?

#36 1023011930 opened 6 months ago
6
AttributeError: 'NoneType' object has no attribute 'split'

#35 Enewmoon closed 6 months ago
0
Redundant output

#34 Wang0293 opened 6 months ago
1
Error when running with test dataset：ModuleNotFoundError: No module named 'torch'

#33 1023011930 opened 6 months ago
3
UnboundLocalError: local variable 'level_num' referenced before assignment

#32 liaohu1231 opened 6 months ago
3
BASALT stopped running

#31 Songq-20 opened 6 months ago
4
UnboundLocalError: local variable 'target_bin_folder' referenced before assignment

#30 Songq-20 opened 6 months ago
3
UnboundLocalError: local variable 'seq len' referenced before assignment

#29 mijiandui opened 7 months ago
0
FileNotFoundError: [Errno 2] No such file or directory: '/work/home/songbing/.cache/BASALT' or ModuleNotFoundError: No module named 'Bio'

#28 B1991ing opened 7 months ago
0
FileNotFoundError: [Errno 2] No such file or directory: '/work/home/songbing/.cache/BASALT'

#27 B1991ing opened 7 months ago
2
a question about dRep and the source of MAGs

#26 liupfskygre opened 7 months ago
1
UnboundLocalError: local variable 'bam_sorted2' referenced before assignment

#25 Aveglia opened 7 months ago
2
ModuleNotFoundError: No module named 'symbol'

#24 haihao999 opened 7 months ago
0
bowtie2每次只运行一个，太慢了，是否可以设置平行几个？

#23 JiayinZhangfdu opened 7 months ago
2
BASALT create some file named core.123xxx after running.

#22 Songq-20 closed 7 months ago
2
Running error: UnicodeDecodeError: 'utf-8' codec can't decode byte 0x8b in position 1: invalid start byte

#21 wangyujie000 closed 7 months ago
1
Only use contig

#20 wangyujie000 closed 7 months ago
1
Error finding "quality_report.tsv" and "*vamb/clusters.tsv'

#19 pthieringer opened 7 months ago
6
command not found

#18 WUD2018 closed 7 months ago
12
the threads setting is not applied for all implemented tools

#17 liupfskygre closed 7 months ago
1
how will BASALT set the min length contigs for each binner

#16 liupfskygre opened 8 months ago
2
run BASALT with multiple assemblies and short reads from several samples

#15 liupfskygre opened 8 months ago
3
where is the 'Bin merging program"

#14 zoubohao opened 8 months ago
1
checkm2 database not found

#13 Caiyulu-818 opened 8 months ago
2
don't hard-code model location

#12 xvazquezc opened 8 months ago
2
BASALT env does not contain BASALT command

#11 bowmanjeffs opened 8 months ago
1
Incorporating previous binning attempts

#10 hrwaik opened 8 months ago
3