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• Bwa/Bowtie Not Running
  Hi- I'm having trouble getting bwa to run on the main server. It seems stuck in the "waiting to ...
• Problems Running Bowtie And Bwa
  I am trying to map fastq files using bowtie and bwa and the job will not run. It has remained gr...
• Mosaik With Paired Reads
  Hello, I'm trying to run Mosaik on our galaxy instance on Ilumina paired reads. However when I se...
• mapping tools error: "Remote job server indicated a problem running or monitoring this job"
  Hi, I'm trying to use bwa or bowtie to align paired collection of reads. However, I am continual...
• BWA waiting to run
  Hi I submited a BWA on my data but the status is still "waiting to run" (for hours). ça you help?...
• Bowtie And Bwa Queue..Other Jobs Dont
  Hi, Bowtie and BWA jobs seem to be forever on queue, but other jobs run normally. Is there a pr...
• What format of data required for Mapping with Bowtie
      I am a new user of Galaxy. Recently, got some next gen RNAseq data from Illumina single end...
• Bwa Errors
  Hi, Two related issues: We tried to run BWA for Illumina on two groomed files (fastqsanger)...
• Bowtie And Bwa Queue'D Up For Hours
  Does anyone know why these mapping programs are taking so long to start running? Is there a prob...
• bwa not recognizing fastq files
  I am trying to map a set of fastq sequences to a custom genome, using BWA. The two setrs of trip...
• Not able to run BWA
  I'm trying to run BWA-MEM using Galaxy. I have a reference.fastq (I built a custom reference) and...
• Bwa And Bowtie Not Working
  Dear Sir/Madam Greetings, This is to inform you that i am the user of galaxy user with an user ...
• Job is waiting to run.
  Hello,  I have been trying to run a Bowtie job(s) for two full days and they just hang with the ...
• map with bwa-mem error
  Could not determine BWA version Traceback (most recent call last): File "/Users/shed_tools/toolsh...
• FASTAQ not able to be selected in BWA, though FastaQC passed
  I need some help. I am trying to map two fastq datasets with Bwa-mem. If I design a workflow by...
• Problem running BWA-MEM mapping
  I am trying to run BWA-MEM mapping in galaxy. I have uploaded FASTQ files using fastqcssanger and...
• Help: Mapping With Bowtie Does Not Start
  Hello, I am trying to map sequences with Bowtie for Illumina. I have been waiting for a whole d...
• Cufflink Does Not Work!
  Hello Di Nguyen, Without seeing your history, my initial guess is that the SAM output from the m...
• Bwa In Galaxy
  Is it possible to align FASTq reads from Illumina Hi-seq reads to human genome in Galaxy? I see o...
• Jobs take long time to start running
  Hi, I have set few jobs to run more than 24 hours ago (BWA and Tophat) but they are still flagge...
• Galaxy "This job is waiting to run" - but it never runs!!
  I've had a problem with galaxy all day, when I try to use the BWA-MEM tool I get the message "Thi...