updated pipeline name in github templates

.github/CONTRIBUTING.md

@@ -1,20 +1,20 @@
-# mk-kondo/mikrokondo: Contributing Guidelines
+# phac-nml/mikrokondo: Contributing Guidelines
 
 Hi there!
-Many thanks for taking an interest in improving mk-kondo/mikrokondo.
+Many thanks for taking an interest in improving phac-nml/mikrokondo.
 
-We try to manage the required tasks for mk-kondo/mikrokondo using GitHub issues, you probably came to this page when creating one.
+We try to manage the required tasks for phac-nml/mikrokondo using GitHub issues, you probably came to this page when creating one.
 Please use the pre-filled template to save time.
 
 However, don't be put off by this template - other more general issues and suggestions are welcome!
 Contributions to the code are even more welcome ;)
 
 ## Contribution workflow
 
-If you'd like to write some code for mk-kondo/mikrokondo, the standard workflow is as follows:
+If you'd like to write some code for phac-nml/mikrokondo, the standard workflow is as follows:
 
-1. Check that there isn't already an issue about your idea in the [mk-kondo/mikrokondo issues](https://github.com/mk-kondo/mikrokondo/issues) to avoid duplicating work. If there isn't one already, please create one so that others know you're working on this
-2. [Fork](https://help.github.com/en/github/getting-started-with-github/fork-a-repo) the [mk-kondo/mikrokondo repository](https://github.com/mk-kondo/mikrokondo) to your GitHub account
+1. Check that there isn't already an issue about your idea in the [phac-nml/mikrokondo issues](https://github.com/phac-nml/mikrokondo/issues) to avoid duplicating work. If there isn't one already, please create one so that others know you're working on this
+2. [Fork](https://help.github.com/en/github/getting-started-with-github/fork-a-repo) the [phac-nml/mikrokondo repository](https://github.com/phac-nml/mikrokondo) to your GitHub account
 3. Make the necessary changes / additions within your forked repository following [Pipeline conventions](#pipeline-contribution-conventions)
 4. Use `nf-core schema build` and add any new parameters to the pipeline JSON schema (requires [nf-core tools](https://github.com/nf-core/tools) >= 1.10).
 5. Submit a Pull Request against the `dev` branch and wait for the code to be reviewed and merged
@@ -52,7 +52,7 @@ These tests are run both with the latest available version of `Nextflow` and als
 
 ## Pipeline contribution conventions
 
-To make the mk-kondo/mikrokondo code and processing logic more understandable for new contributors and to ensure quality, we semi-standardise the way the code and other contributions are written.
+To make the phac-nml/mikrokondo code and processing logic more understandable for new contributors and to ensure quality, we semi-standardise the way the code and other contributions are written.
 
 ### Adding a new step
 
@@ -102,7 +102,7 @@ This repo includes a devcontainer configuration which will create a GitHub Codes
 
 To get started:
 
-- Open the repo in [Codespaces](https://github.com/mk-kondo/mikrokondo/codespaces)
+- Open the repo in [Codespaces](https://github.com/phac-nml/mikrokondo/codespaces)
 - Tools installed
   - nf-core
   - Nextflow

.github/PULL_REQUEST_TEMPLATE.md

@@ -15,7 +15,7 @@ Learn more about contributing: [CONTRIBUTING.md](https://github.com/mk-kondo/mik
 
 - [ ] This comment contains a description of changes (with reason).
 - [ ] If you've fixed a bug or added code that should be tested, add tests!
-- [ ] If you've added a new tool - have you followed the pipeline conventions in the [contribution docs](https://github.com/mk-kondo/mikrokondo/tree/master/.github/CONTRIBUTING.md)
+- [ ] If you've added a new tool - have you followed the pipeline conventions in the [contribution docs](https://github.com/phac-nml/mikrokondo/tree/master/.github/CONTRIBUTING.md)
 - [ ] Make sure your code lints (`nf-core lint`).
 - [ ] Ensure the test suite passes (`nextflow run . -profile test,docker --outdir <OUTDIR>`).
 - [ ] Usage Documentation in `docs/usage.md` is updated.