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License: GNU General Public License v3.0
CSBB - Computational Suite For Bioinformaticians and Biologists
License: GNU General Public License v3.0
Hello,
You may want to consider using the Anaconda python/r distribution and bioconda (https://bioconda.github.io) project to simplify installation of the tools used here. Regards
Hi I was trying CSBB. Install modules went OK. But when I try to run modules on the test files I run into problems.
Running BasicStats I get Excecution Stopped because of errors ... Contact Praneet Chaturvedi for bugs and issues on github. There is no error log.
For Process_RNASeq_SingleEnd I get
(base) nickwebster@nicks-imac-pro CSBB_Integrated_RNAseq_analysis % perl CSBB-v3.0_MacOS.pl Process-RNASeq_SingleEnd ~/CSBB/Test_Files/SingleEnd_RNA-seq.fastq xenopus-leavis ~/CSBB/test phred33
Operating System is darwin
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CSBB - Computational Suite For Bioinformaticians and Biologists
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Version_3.0
Developed and maintained by Praneet Chaturvedi!!
Please report issues and bugs on https://github.com/csbbcompbio/CSBB-v3.0
CSBB-v3.0 Last run : Mon Sep 26 12:36:48 2022
Current Run: Mon Sep 26 13:27:28 2022
/Users/nickwebster/CSBB/CSBB-v3.0_Logs directory is already present, CSBB will use the same to write module logs
Process-RNASeq_SingleEnd module loaded
CSBB is creating /Users/nickwebster/CSBB/test/Quality_Check_Reports for writing Quality Check results
CSBB will use Fastqc for Quality Check, RSEM for mapping and quantification and UCSC utilities for generating Bigwig Files
(base) nickwebster@nicks-imac-pro
It seems that my Mac is preventing some modules from running. Any ideas?
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