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Trinotate / Trinotate.github.io

web documentation for Trinotate
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Trinotate Installation #69

Open nisntraj opened 7 months ago

nisntraj commented 7 months ago

Hi everyone, I have downloaded and extracted the Trinotate source code from This link " https://github.com/Trinotate/Trinotate/releases ". But i don't have idea how to install it. please guide me to install this latest version of Trinotate in my Ubuntu system.

Thankyou in advance

brianjohnhaas commented 7 months ago

Hi,

Please follow the documentation here: https://github.com/Trinotate/Trinotate/wiki/Software-installation-and-data-required

Note, it's best to use the singularity image: https://github.com/Trinotate/Trinotate/wiki/TrinotateViaSingularity

On Mon, Nov 20, 2023 at 12:50 AM nisntraj @.***> wrote:

Hi everyone, I have downloaded and extracted the Trinotate source code from This link " https://github.com/Trinotate/Trinotate/releases ". But i don't have idea how to install it. please guide me to install this latest version of Trinotate in my Ubuntu system.

Thankyou in advance

— Reply to this email directly, view it on GitHub https://github.com/Trinotate/Trinotate.github.io/issues/69, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABZRKX4MFZRY72B7UJYG34DYFLVTDAVCNFSM6AAAAAA7SLMWSKVHI2DSMVQWIX3LMV43ASLTON2WKOZSGAYDCNBRHAZDIOA . You are receiving this because you are subscribed to this thread.Message ID: @.***>

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nisntraj commented 7 months ago

Thank you so much for your support. I'm facing an error while using the first command of Trinotate.

COMMAND: ./Trinotate --create --db /usr/local/bin/trinotate/util/admin/Trinotate.sqlite --trinotate_data_dir /home/sunil/

ERROR: -CREATING /usr/local/bin/trinotate/util/admin/Trinotate.sqlite and populating data dir: /home/sunil/ WARNING: SQLITE database /usr/local/bin/trinotate/util/admin/Trinotate.sqlite already exists and wont be replaced. -error, cannot locate required utility: cmpress, be sure it is installed and available via your PATH env var setting Error, missing at least one required utility. See above for specifics. at ./Trinotate line 361. main::run_Trinotate_create("/usr/local/bin/trinotate/util/admin/Trinotate.sqlite", "/home/sunil/") called at ./Trinotate line 248

please guide me for the same.

brianjohnhaas commented 7 months ago

Hi,

There's a lot of software that needs to be installed for the entire system to work, which is why we make the singularity image available. If you want to see the full software stack and how it's installed, you can follow this:

https://github.com/Trinotate/Trinotate/blob/master/Docker/Dockerfile

but I recommend using our singularity image.

On Wed, Nov 22, 2023 at 11:48 PM nisntraj @.***> wrote:

Thank you so much for your support. I'm facing an error while using the first command of Trinotate.

COMMAND: ./Trinotate --create --db /usr/local/bin/trinotate/util/admin/Trinotate.sqlite --trinotate_data_dir /home/sunil/

ERROR: -CREATING /usr/local/bin/trinotate/util/admin/Trinotate.sqlite and populating data dir: /home/sunil/ WARNING: SQLITE database /usr/local/bin/trinotate/util/admin/Trinotate.sqlite already exists and wont be replaced. -error, cannot locate required utility: cmpress, be sure it is installed and available via your PATH env var setting Error, missing at least one required utility. See above for specifics. at ./Trinotate line 361. main::run_Trinotate_create("/usr/local/bin/trinotate/util/admin/Trinotate.sqlite", "/home/sunil/") called at ./Trinotate line 248

please guide me for the same.

— Reply to this email directly, view it on GitHub https://github.com/Trinotate/Trinotate.github.io/issues/69#issuecomment-1823817691, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABZRKXYZMTJZV7WFQ3DKTNDYF3ISXAVCNFSM6AAAAAA7SLMWSKVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTQMRTHAYTONRZGE . You are receiving this because you commented.Message ID: @.***>

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