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Linux binary for v1.0.3 cannot be downloaded #253

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fran-romero-campero opened this issue Apr 14, 2024 · 2 comments
Open

Linux binary for v1.0.3 cannot be downloaded #253

fran-romero-campero opened this issue Apr 14, 2024 · 2 comments

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@fran-romero-campero
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I have tried to download the binary for linux v1.0.3 but the link seems to be broken.

@taein98
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taein98 commented May 2, 2024

I also want to get this.

@IBEXCluster
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IBEXCluster commented May 13, 2024

dear @fran-romero-campero and @taein98
Conda repository works for me!
conda install bioconda::transrate

Note: Please ensure to create Python 3.8.0 virtual environment to address couple of dependencies.

Example:

conda create -n transrate python=3.8.0
source activate transrate
conda install bioconda::transrate


$ transrate --help                                                                                                                                                                    
[DEPRECATION] The trollop gem has been renamed to optimist and will no longer be supported. Please switch to optimist as soon as possible.                                                                                   
           _                                        _                                                                                                                                                                        
          | |_  _ __  __ _  _ __   ___  _ __  __ _ | |_  ___                                                                                                                                                                 
░▓▓▓^▓▓▓░ | __|| '__|/ _` || '_ \ / __|| '__|/ _` || __|/ _ \ ░▓▓▓^▓▓▓░                                                                                                                                                      
░▓▓▓^▓▓▓░ | |_ | |  | (_| || | | |\__ \| |  | (_| || |_|  __/ ░▓▓▓^▓▓▓░                                                                                                                                                      
░▓▓▓^▓▓▓░  \__||_|   \__,_||_| |_||___/|_|   \__,_| \__|\___| ░▓▓▓^▓▓▓░                                                                                                                                                      
                                                                                                                                                                                                                             
Transrate v1.0.3                                                                                                                                                                                                             
by Richard Smith-Unna, Chris Boursnell, Rob Patro,                                                                                                                                                                           
   Julian Hibberd, and Steve Kelly                                                                                                                                                                                           
                                                                                                                                                                                                                             
DESCRIPTION:                                                                                                                                                                                                                 
Analyse a de-novo transcriptome assembly using three kinds of metrics:                                                                                                                                                       
                                                                                                                                                                                                                             
1. sequence based (if --assembly is given)                                                                                                                                                                                   
2. read mapping based (if --left and --right are given)                                                                                                                                                                      
3. reference based (if --reference is given)                                                                                                                                                                                 
                                                                                                                                                                                                                             
Documentation at http://hibberdlab.com/transrate                                                                                                                                                                             
                                                                                                                                                                                                                             
USAGE:                                                                                                                                                                                                                       
transrate <options>                                                                                                                                                                                                          
                                                                                                                                                                                                                             
OPTIONS:                                                                                                                                                                                                                     
  --assembly=<s>            Assembly file(s) in FASTA format, comma-separated                                                                                                                                                
  --left=<s>                Left reads file(s) in FASTQ format, comma-separated                                                                                                                                              
  --right=<s>               Right reads file(s) in FASTQ format, comma-separated                                                                                                                                             
  --reference=<s>           Reference proteome or transcriptome file in FASTA format                                                                                                                                         
  --threads=<i>             Number of threads to use (default: 8)                                                                                                                                                            
  --merge-assemblies=<s>    Merge best contigs from multiple assemblies into file                                                                                                                                            
  --output=<s>              Directory where results are output (will be created) (default: transrate_results)                                                                                                                
  --loglevel=<s>            Log level. One of [error, info, warn, debug] (default: info)                                                                                                                                     
  --install-deps=<s>        Install any missing dependencies. One of [read, ref, all]                                                                                                                                        
  --examples                Show some example commands with explanations                       

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