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Dowell-Lab / FStitch

Fast Stitch Reader (FStitch) -- fast-processing tool written in C for the annotation of regions of active transcription.
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request validated data, training and output files #16

Open sandymartin opened 5 years ago

sandymartin commented 5 years ago

In order to help troubleshoot our installation which is not working it would be helpful if you could post a bedGraph file, a training file and the corresponding successful output files for FStitch train and segment.

magruca commented 5 years ago

@sandymartin I have added additional, more explicit, error message outputs. If you git pull, make clean, and re-compile, hopefully these will help you further identify where things are going wrong. I mentioned this in previous communication, but there is a functional Docker/Singularity container, as well. You can also now install FStitch via conda: conda install -c dowell-lab fstitch

sandymartin commented 5 years ago

Thanks for letting me know, Margaret.

From: Margaret Gruca notifications@github.com Sent: Sunday, July 21, 2019 10:27 AM To: Dowell-Lab/FStitch FStitch@noreply.github.com Cc: Martin, Sandy SANDY.MARTIN@CUANSCHUTZ.EDU; Mention mention@noreply.github.com Subject: Re: [Dowell-Lab/FStitch] request validated data, training and output files (#16)

@sandymartinhttps://github.com/sandymartin I have added additional, more explicit, error message outputs. If you git pull, make clean, and re-compile, hopefully these will help you further identify where things are going wrong. I mentioned this in previous communication, but there is a functional Docker/Singularity container, as well. You can also now install FStitch via conda: conda install -c dowell-lab fstitch

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHubhttps://github.com/Dowell-Lab/FStitch/issues/16?email_source=notifications&email_token=ACWHJ6ILEMNIF2AUQNA6SADQASE5VA5CNFSM4HLNIINKYY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD2OG4OY#issuecomment-513568315, or mute the threadhttps://github.com/notifications/unsubscribe-auth/ACWHJ6OZTPWLIMPFD25357DQASE5VANCNFSM4HLNIINA.

magruca commented 5 years ago

Of course! One other thing to note -- we will soon have all of our FStitch data (including training files, segment data, and bidirectional annotations) that you are requesting here integrated into a new/updated version of our publish nascent database @ nascent.colorado.edu which will include all published nascent data. We're hoping to have the new release launched by October.