Comments (7)
wdecoster
commented on August 16, 2024
1
Oh yes I would indeed recommend using mamba rather than the normal conda.
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wdecoster
commented on August 16, 2024
Could you please try again, but create a separate environment?
conda create -n chopper_env chopper
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SelfShubham
commented on August 16, 2024
with above suggested command. I am getting following error
PackagesNotFoundError: The following packages are not available from current channels:
- chopper
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SelfShubham
commented on August 16, 2024
If I first create an environment than try to install using conda (conda install -c bioconda chopper). I am getting same error
Error
Found conflicts! Looking for incompatible packages.
This can take several minutes. Press CTRL-C to abort.
failed
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wdecoster
commented on August 16, 2024
Is your conda installation recent? Are you using mamba?
Or could you just download the binary from the releases?
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SelfShubham
commented on August 16, 2024
using conda but installation is not recent.
will try with binary file.
Thank you
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incoherentian
commented on August 16, 2024
Is your conda installation recent? Are you using mamba?
Just throwing out there that I find mamba to solve more problems than it causes, and wouldn't usually suspect mamba :)
My chopper env and others are all created with 3y/o mamba and working fine!
Binary working though @SelfShubham ?
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Related Issues (20)
- sequencing_summary.txt feature HOT 1
- error: Found argument 'file.fastq' which wasn't expected, or isn't valid in this context HOT 8
- /lib64/libc.so.6 issue HOT 5
- Filter out reads marked as contaminants? HOT 1
- Cannot Download Chopper HOT 4
- Nanopore barcode/adapter detection HOT 2
- Give minimap more threads when available. HOT 4
- missing ".with_cigar()" in Aligner? HOT 7
- Recommended defaults? HOT 5
- Not running on aarch64 HOT 11
- Not working on M2 Mac HOT 6
- Help with --contam parameter HOT 1
- chopper with bam files HOT 1
- Instatlation issue HOT 2
- confuse problem HOT 10
- minimap2 preset for `--contam` HOT 9
- chopper v0.8.0 GLIBC_2.XX not found HOT 2
- Cannot use either wget, conda, or mamba to install chopper HOT 7
- --contam ：Filter contaminants against a fasta
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