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• Assigning a "sample_name" column dynamically in the SAM tool generate pileup
  Hi everyone, I am creating a workflow in Galaxy that I will be using for variant analysis for ab...
• Dynamic Tool Parameter Lists based on an Input File
  What is the best way (or any way) to generate dynamic Galaxy tool fields based on data inside a s...
• MapAlignerPoseClustering on Galaxy
  Hello, I would like to use function MapAlignerPoseClustering from OpenMS in my Galaxy workflow f...
• Is it possible for workflow parameters to take information from the names of input datasets? e.g. ${Read_group } is set to be the first three characters of input dataset name.
  HI. I would like to run a workflow in parallel on list of  multiple data sets (using the dataset ...
• Workflow inserting input name to output file
  I've looked through some of the answers but they are all about renaming the output file. I would ...
• discover_dataset rename dataset in history
  Hi, I am using discover_dataset to retrieve multiple output files created. The xml works fine, bu...
• Planemo tutorial test - "Failed to resolve dependency" "Error loading a set of Dynamic Display Application links"
  I have been trying to follow the tutorial ["The Basics" under "Building Galaxy Tools ... using P...
• Workflow Improvement Requests (Long)
  Dear all, Recently, users (of our local galaxy server) started using workflows, and are very ple...
• How do I automagically make informative dataset names at different workflow stages?
  I have a collection of 16 FASTQ files that I have made into a list as input to a simple workflow....
• Setting Dbkey In A Workflow
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• FreeBayes doesn't use workflow variable
  Hi, I have a local Galaxy instance, and have made a workflow for multiple samples. The workflow ...
• edited workflow not saved
  I have been trying to edit one of my workflows.  I can do the modifications but then I cannot sav...
• Workflow Questions
  I have two questions about constructing a workflow, or possible requests for changes. 1) Is it ...
• Manually change the order of none input/output entry modules in a workflow
  Hi, I am trying to run multiple modules in order in a single workflow. The data is written to ext...
• using code for validators in galaxy
  I have a form whose inputs that are dynamically parsed when the user clicks "execute" this is be...
• Using filename as a tool variable
  I know you can use #{input} in the workflow editor to change the name of the output files, howeve...
• bedtools, changing output attributes
  Hi, I'm using the bedtools "Intersect intervals find overlapping intervals in various ways" tool....
• bowtie2 rename dataset from paired list
  Hi, I have a paired reads dataset list that I use for a bowtie2 workflow. I try to rename the ou...
• Output files after Workflow run is completed
  Hi Everyone, i am working on galaxy with bioblend API and when i have run a workflow with proper ...
• Workflows With Parameters
  Hi, I was talking about the Galaxy workflow with someone recently. He pointed out an "obvious" l...