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Merged
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Feb 15, 2024
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Patch 5 #3356

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57d1b14
Update CHANGELOG.md
antgonza Jan 29, 2024
00bf45c
Update INSTALL.md
sjanssen2 Feb 14, 2024
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2 changes: 1 addition & 1 deletion CHANGELOG.md
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Expand Up @@ -13,7 +13,7 @@ Deployed on January 8th, 2024
* Workflow definitions can now use sample or preparation information columns/values to differentiate between them.
* Updated the Adapter and host filtering plugin (qp-fastp-minimap2) to v2023.12 addressing a bug in adapter filtering; [more information](https://qiita.ucsd.edu/static/doc/html/processingdata/qp-fastp-minimap2.html).
* Other fixes: [3334](https://github.com/qiita-spots/qiita/pull/3334), [3338](https://github.com/qiita-spots/qiita/pull/3338). Thank you @sjanssen2.
* The internal Sequence Processing Pipeline is now using the human pan-genome reference, together with the GRCh38 genome + PhiX and CHM13 genome for human host filtering.
* The internal Sequence Processing Pipeline is now using the human pan-genome reference, together with the GRCh38 genome + PhiX and T2T-CHM13v2.0 genome for human host filtering.


Version 2023.10
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12 changes: 6 additions & 6 deletions INSTALL.md
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Expand Up @@ -224,15 +224,15 @@ export REDBIOM_HOST=http://my_host.com:7379

## Configure NGINX and supervisor

(NGINX)[https://www.nginx.com/] is not a requirement for Qiita development but it's highly recommended for deploys as this will allow us
to have multiple workers. Note that we are already installing (NGINX)[https://www.nginx.com/] within the Qiita conda environment; also,
that Qiita comes with an example (NGINX)[https://www.nginx.com/] config file: `qiita_pet/nginx_example.conf`, which is used in the Travis builds.
[NGINX](https://www.nginx.com/) is not a requirement for Qiita development but it's highly recommended for deploys as this will allow us
to have multiple workers. Note that we are already installing [NGINX](https://www.nginx.com/) within the Qiita conda environment; also,
that Qiita comes with an example [NGINX](https://www.nginx.com/) config file: `qiita_pet/nginx_example.conf`, which is used in the Travis builds.

Now, (supervisor)[https://github.com/Supervisor/supervisor] will allow us to start all the workers we want based on its configuration file; and we
need that both the (NGINX)[https://www.nginx.com/] and (supervisor)[https://github.com/Supervisor/supervisor] config files to match. For our Travis
Now, [supervisor](https://github.com/Supervisor/supervisor) will allow us to start all the workers we want based on its configuration file; and we
need that both the [NGINX](https://www.nginx.com/) and [supervisor](https://github.com/Supervisor/supervisor) config files to match. For our Travis
testing we are creating 3 workers: 21174 for master and 21175-6 as a regular workers.

If you are using (NGINX)[https://www.nginx.com/] via conda, you are going to need to create the NGINX folder within the environment; thus run:
If you are using [NGINX](https://www.nginx.com/) via conda, you are going to need to create the NGINX folder within the environment; thus run:

```bash
mkdir -p ${CONDA_PREFIX}/var/run/nginx/
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