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yarden / MISO

MISO: Mixture of Isoforms model for RNA-Seq isoform quantitation
http://genes.mit.edu/burgelab/miso/index.html
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ValueError: numpy.dtype has the wrong size, try recompiling. Expected 88, got 96 #133

Open sneha100895 opened 5 years ago

sneha100895 commented 5 years ago

Hi,

I am trying to use MISO to look for alternative splicing events. I have paired-end RNA-seq data. I have created the index for gff annotations and calculated the mean and standard deviation for the paired end reads. When I try to run miso, I get the following error:

ValueError: numpy.dtype has the wrong size, try recompiling. Expected 88, got 96

This is the code I'm using: miso --run indexed_gff ../index/ConAc_A2-11D.sorted.bam --output-dir MISO_output --read-len 98 --paired-end 202.5 74.7 --settings-filename /project/uml_frederic_chain/Daphnia/MISO/miso_settings.txt --use-cluster

The bam file and its index are in the same directory Nd I'm using numpy version 1.9.2

Could you please let me let me know what the problem might be?

Thank you, Sneha

obenno commented 5 years ago

Hi Sneha,

Could you try to install misopy via bioconda and see if it fix the problem?

Bests, obenno

On Sun, Feb 24, 2019 at 1:01 AM sneha100895 notifications@github.com wrote:

Hi,

I am trying to use MISO to look for alternative splicing events. I have paired-end RNA-seq data. I have created the index for gff annotations and calculated the mean and standard deviation for the paired end reads. When I try to run miso, I get the following error:

ValueError: numpy.dtype has the wrong size, try recompiling. Expected 88, got 96

This is the code I'm using: miso --run indexed_gff ../index/ConAc_A2-11D.sorted.bam --output-dir MISO_output --read-len 98 --paired-end 202.5 74.7 --settings-filename /project/uml_frederic_chain/Daphnia/MISO/miso_settings.txt --use-cluster

The bam file and its index are in the same directory Nd I'm using numpy version 1.9.2

Could you please let me let me know what the problem might be?

Thank you, Sneha

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