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PacificBiosciences / pbbioconda

PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
BSD 3-Clause Clear License
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unable to run on mac #661

Closed proukakis closed 4 months ago

proukakis commented 4 months ago

Operating system Mac 12.6

Package name pbmm2 latest version via conda

Conda environment pbmm2 1.7.0 h9d1909e_1 bioconda python 3.8.3 h26836e1_1
(does it need 2.7? have also tried it in this, same results)

Describe the bug $ pbmm2 align ref.mmi reads.bam aligned.bam

(from Revio)

Error message

|> 20240313 22:42:54.640 -|- FATAL -|- CheckPositionalArgs -|- 0x2045c9600|| -|- pbmm2 align ERROR: Could not determine read input type(s). Please do not mix data types, such as BAM+FASTQ. File of files may only contain BAMs or datasets.

thanks

tanyasarkjain commented 4 months ago

Having the same issue

armintoepfer commented 4 months ago

This list will tell you MacOS compatibility https://github.com/PacificBiosciences/pbbioconda?tab=readme-ov-file#packages