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• Error to run Fastqc
  Dear Sir, Fastqc is not run they show the Fatal error: Exit code 1 (). So please help me sir.
• FastQC on Main Galaxy broken
  When I try and do FastQC on fastqsanger files at usegalaxy.org, I get: Fatal error: Exit code 1 ...
• FastQC Fatal Error: Exit code 1 ()
  Hi, I'm new to Galaxy and have minimal experience with Linux. I have installed Galaxy on a local...
• AddOrReplaceReadGroups Fatal error
  **Dear Biostars/Galaxy Friends, Hi** I am using `AddOrReplaceReadGroups` in online galaxy for t...
• Error - FastQC Read Quality report
  Fatal error: Exit code 1 () Picked up _JAVA_OPTIONS: -Djava.io.tmpdir=/galaxy-repl/main/scratch -...
• FASTQC issue getting error in web page
  Thank you for that. I did finally upload my sequence using the file zilla. First I changed my .gz...
• Flexbar-Galaxy, Fatal error: Exit code 1
  Good morning, I have a problem with Galaxy, I had installed Flexbar, on "manage installed tool" ...
• fastqc not found
  I'm having a problem with fastqc. I don't understand why it claims not to be found. What am I m...
• VCFfilter - Fatal error: Exit code 1
  Hi there, When I run my FreeBayes output file through the VCFfilter, I get a 'Fatal error: Exit ...
• Variant Calling Free Bayes BamLeftAlign
  When trying to run Galaxy on the platform I keep having the same error message when using FreeBay...
• Galaxy in Ubuntu14 can't find directory
  I just intall the Galaxy on my Ubuntu 14 and install tools from tool sheds successfully.  However...
• Salmon tool error: libgomp.so.1 missing
  I started a salmon job on the main galaxy site and I got the error: Fatal error: Exit code 127 (...
• fatal error exit code 1 from Trimmomatic when input fastq data has an incorrect datatype assignment
  trying to run my dataset with trimmomatic I have changed the files to fast-q-sanger, but it isn'...
• Tool error due to format or content problem
  Fatal error: Exit code 1 () Picked up _JAVA_OPTIONS: -Djava.io.tmpdir=/galaxy-repl/main/jobdir/01...
• Fastq to fasta failure -- truncated uploaded datasets
  fatal error: Exit code 1 () fastq_to_fasta: Error: invalid quality score data on line 4 (...
• NGS-QC and manipulatrion
  What is the error meaning? Fatal error: Exit code 1 () Picked up _JAVA_OPTIONS: -Djava.io.tmpdir=...
• How to debug VT normalize on the Galaxy cloud instance?
  How to debug VT normalize on the Galaxy cloud instance? Here is the log: Dataset 116: VT nor...
• Fatal error :Exit code 1
  Am getting the error below with "NSG: Picard:" and am using the tool "fixmate information". What ...
• Fatal error in Trimmomatic
  Hi all, I have been trying to run a Trimmomatic trim on my data since Friday. Trimmomatic will b...
• Freebayes issue on merged data
  Hi, I am completely new to this field so I'm hoping this is a simple mistake on my part. I'm tr...
• Fatal error with SamToFastq using BAM files
  Hello Biostars, I am a new Galaxy user and have some bam files that I need to run through RNA se...
• FastQC IndexError: list index out of range
  Hi Yesterday the four runs that was doing failed at the FastQC stage - some were FastQC of fastq...