These are chat archives for dereneaton/ipyrad
I have a problem with running ipyrad... I keep receiving the message
"Encountered an error, see ./ipyrad_log.txt.
No ipcluster instance found. This may be a problem with your installation
setup. I would recommend that you contact the ipyrad developers."
When struggling with running step1 I read the thread on the google groups, I tried what suggested there (ipcluster start --n 48 --profile=ipyrad --daemonize sleep 60)
but it did not help. I contacted the IT guy responsible for the installations of ipyrad on our servers and he found out that was a problem with the installation so suddenly Step1 started working. Now when trying to run step 2 or 3 I get again exactly the same problem and I don't understand why.
On top of this I also am having problems if I try to run step 3 starting from data that have been already quality filtered and demultiplexed. Even if I refer to the location of the files in the params file argument ##  [sorted_fastq_path]: Location of demultiplexed/sorted fastq files, the program crushes saying "no assebly found".
So all in all I can't step forward in either step12 nor in step3...
Any help would be really precious. I am working on European time so there is a time delay in exchanging messages.
Thank you very much already from now!
project_dirparameters in your params file. If you do that then ipyrad will no longer be able to find your Assembly.