LongQC

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@yfukasawa Hello Sir, I find LongQC description valuable to me so i downloaded and installed it and required programs. But i am facing problem with it's run command "sudo docker...

shivvratjha

Hello, and thank you for this useful tool. I'm wondering if sampleqc can be run in a batch mode to process all raw read files in a directory? and eventually...

hbadrane

"UnsatisfiableError" during installation

10

Hello! I encountered several errors while installing. Please, help to solve it. Steps to reproduce: ## With manual installation: 1. Install Anaconda 3: ``` # install anaconda prerequisites sudo apt...

YePererva

empty longqc_sdust.txt

4

Hi, I want to try this tool on my pacbio long-read samples. Here is the command I used `python longQC.py sampleqc -x pb-hifi -o /hpf/largeprojects/TG/test_qc /hpf/largeprojects/long_read_RNA/pacbio/NUT22988_Isoseq-WT-10_CELL1/flnc.bam -p 8 --index 50M`...

lyj95618

Hello, I'm interested in using LongQC and I was wondering if there's an official Conda recipe available for it. Is it possible to install LongQC entirely through Conda? Thank you...

ChristosMatzoros

ValueError when mode_logn_main is nan

3

Hi, In a sample with very few reads, I got the following error in the `calc_xome_size` function caused by https://github.com/yfukasawa/LongQC/blob/d55acc1b9911fe795c4efe9f15eee8c51581cc73/lq_coverage.py#L375 `ValueError: cannot convert float NaN to integer` As a quick...

husensofteng

AttributeError: module 'pysam' has no attribute 'FastxFile'

1

Hi, thank you very much for this tool. I have been trying to run this for a while now and I keep receiving the same error message: I ran the...

Rhia15

pandas.errors.EmptyDataError: No columns to parse from file

15

Hi, Thanks for the great work. I experience a similar issue as described here #28 and here #34. ``` longQC:2021-10-27 08:06:14,443:598:INFO:Generating coverage related plots... Traceback (most recent call last): File...

AaronRuben

longqc

7

while running longqc I had this error can someone tell me what the problem is ValueError: truncated quality string in [my path to the fastq file]

chaikhi-soumaya

Running LongQC always returns Killed error

1

Hi, thanks for creating LongQC. I am trying it on PacBio subreads BAM file which has 160 GB, but I am always getting Killed error. Here is my command: `...

looxon93