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index 07ab592d27..450f1d303c 100644
--- a/tests/pipelines/__snapshots__/test_create_app/test_customisation_help.svg
+++ b/tests/pipelines/__snapshots__/test_create_app/test_customisation_help.svg
@@ -19,257 +19,257 @@
font-weight: 700;
}
- .terminal-3477423502-matrix {
+ .terminal-333203530-matrix {
font-family: Fira Code, monospace;
font-size: 20px;
line-height: 24.4px;
font-variant-east-asian: full-width;
}
- .terminal-3477423502-title {
+ .terminal-333203530-title {
font-size: 18px;
font-weight: bold;
font-family: arial;
}
- .terminal-3477423502-r1 { fill: #c5c8c6 }
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-.terminal-3477423502-r22 { fill: #a7a9ab }
-.terminal-3477423502-r23 { fill: #e2e3e3 }
+ .terminal-333203530-r1 { fill: #c5c8c6 }
+.terminal-333203530-r2 { fill: #e3e3e3 }
+.terminal-333203530-r3 { fill: #989898 }
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+.terminal-333203530-r23 { fill: #e2e3e3 }
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+
- nf-core pipelines create
+ nf-core pipelines create
-
+
-
- ⭘nf-core pipelines create — Create a new pipeline with the nf-core pipeline templa…
-
-
-Template features
-
-
-▊▔▔▔▔▔▔▔▔▎
-▊▎ Toggle all features
-▊▁▁▁▁▁▁▁▁▎
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Use a GitHub Create a GitHub Show help
-▊▁▁▁▁▁▁▁▁▎ repository.repository for the ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-pipeline.
-
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Add Github CI testsThe pipeline will Show help
-▊▁▁▁▁▁▁▁▁▎include several GitHub▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-actions for Continuous
-Integration (CI)
-testing
-
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Use reference genomesThe pipeline will be Hide help
-▊▁▁▁▁▁▁▁▁▎configured to use a ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-copy of the most
-common reference
-genome files from
-iGenomes
-
-
-Nf-core pipelines are configured to use a copy of the most common reference
-genome files.
-
-By selecting this option, your pipeline will include a configuration file
-specifying the paths to these files.
-
-The required code to use these files will also be included in the template.
-When the pipeline user provides an appropriate genome key, the pipeline will
-automatically download the required reference files.
-▅▅
-For more information about reference genomes in nf-core pipelines, see the
-
-
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Add Github badgesThe README.md file of Show help
-▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- Back Continue
-▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-
- d Toggle dark mode q Quit a Toggle all
+
+ ⭘nf-core pipelines create — Create a new pipeline with the nf-core pipeline templa…
+
+
+Template features
+
+
+▊▔▔▔▔▔▔▔▔▎
+▊▎ Toggle all features
+▊▁▁▁▁▁▁▁▁▎
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Use a GitHub Create a GitHub Show help
+▊▁▁▁▁▁▁▁▁▎ repository.repository for the ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+pipeline.
+
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Add Github CI testsThe pipeline will Show help
+▊▁▁▁▁▁▁▁▁▎include several GitHub▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+actions for Continuous▃▃
+Integration (CI)
+testing
+
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Use reference genomesThe pipeline will be Hide help
+▊▁▁▁▁▁▁▁▁▎configured to use a ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+copy of the most
+common reference
+genome files from
+iGenomes
+
+
+Nf-core pipelines are configured to use a copy of the most common reference
+genome files.
+
+By selecting this option, your pipeline will include a configuration file
+specifying the paths to these files.
+
+The required code to use these files will also be included in the template.
+When the pipeline user provides an appropriate genome key, the pipeline will
+automatically download the required reference files.
+▅▅
+For more information about reference genomes in nf-core pipelines, see the
+
+
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Add Github badgesThe README.md file of Show help
+▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ Back Continue
+▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+
+ d Toggle dark mode q Quit a Toggle all
diff --git a/tests/pipelines/__snapshots__/test_create_app/test_type_custom.svg b/tests/pipelines/__snapshots__/test_create_app/test_type_custom.svg
index cc34c92537..6e178ba840 100644
--- a/tests/pipelines/__snapshots__/test_create_app/test_type_custom.svg
+++ b/tests/pipelines/__snapshots__/test_create_app/test_type_custom.svg
@@ -19,256 +19,256 @@
font-weight: 700;
}
- .terminal-829252251-matrix {
+ .terminal-3425198753-matrix {
font-family: Fira Code, monospace;
font-size: 20px;
line-height: 24.4px;
font-variant-east-asian: full-width;
}
- .terminal-829252251-title {
+ .terminal-3425198753-title {
font-size: 18px;
font-weight: bold;
font-family: arial;
}
- .terminal-829252251-r1 { fill: #c5c8c6 }
-.terminal-829252251-r2 { fill: #e3e3e3 }
-.terminal-829252251-r3 { fill: #989898 }
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-.terminal-829252251-r21 { fill: #a7a9ab }
-.terminal-829252251-r22 { fill: #e2e3e3 }
+ .terminal-3425198753-r1 { fill: #c5c8c6 }
+.terminal-3425198753-r2 { fill: #e3e3e3 }
+.terminal-3425198753-r3 { fill: #989898 }
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+.terminal-3425198753-r22 { fill: #e2e3e3 }
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+
- nf-core pipelines create
+ nf-core pipelines create
-
+
-
- ⭘nf-core pipelines create — Create a new pipeline with the nf-core pipeline templa…
-
-
-Template features
-
-
-▊▔▔▔▔▔▔▔▔▎
-▊▎ Toggle all features
-▊▁▁▁▁▁▁▁▁▎
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Use a GitHub Create a GitHub Show help
-▊▁▁▁▁▁▁▁▁▎ repository.repository for the ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-pipeline.
-
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Add Github CI testsThe pipeline will Show help
-▊▁▁▁▁▁▁▁▁▎include several GitHub▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-actions for Continuous
-Integration (CI) ▁▁
-testing
-
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Use reference genomesThe pipeline will be Show help
-▊▁▁▁▁▁▁▁▁▎configured to use a ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-copy of the most
-common reference
-genome files from
-iGenomes
-
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Add Github badgesThe README.md file of Show help
-▊▁▁▁▁▁▁▁▁▎the pipeline will ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-include GitHub badges
-
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Add configuration The pipeline will Show help
-▊▁▁▁▁▁▁▁▁▎ filesinclude configuration ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-profiles containing
-custom parameters
-required to run
-nf-core pipelines at
-different institutions
-
-▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
-▊▎ Use code lintersThe pipeline will Show help
-▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- Back Continue
-▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-
- d Toggle dark mode q Quit a Toggle all
+
+ ⭘nf-core pipelines create — Create a new pipeline with the nf-core pipeline templa…
+
+
+Template features
+
+
+▊▔▔▔▔▔▔▔▔▎
+▊▎ Toggle all features
+▊▁▁▁▁▁▁▁▁▎
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Use a GitHub Create a GitHub Show help
+▊▁▁▁▁▁▁▁▁▎ repository.repository for the ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+pipeline.
+
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Add Github CI testsThe pipeline will Show help
+▊▁▁▁▁▁▁▁▁▎include several GitHub▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+actions for Continuous
+Integration (CI) ▄▄
+testing
+
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Use reference genomesThe pipeline will be Show help
+▊▁▁▁▁▁▁▁▁▎configured to use a ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+copy of the most
+common reference
+genome files from
+iGenomes
+
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Add Github badgesThe README.md file of Show help
+▊▁▁▁▁▁▁▁▁▎the pipeline will ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+include GitHub badges
+
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Add configuration The pipeline will Show help
+▊▁▁▁▁▁▁▁▁▎ filesinclude configuration ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+profiles containing
+custom parameters
+required to run
+nf-core pipelines at
+different institutions
+
+▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+▊▎ Use code lintersThe pipeline will Show help
+▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ Back Continue
+▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+
+ d Toggle dark mode q Quit a Toggle all
diff --git a/tests/pipelines/__snapshots__/test_create_app/test_type_nfcore_validation.svg b/tests/pipelines/__snapshots__/test_create_app/test_type_nfcore_validation.svg
index fd6f2532c8..f99e463b3c 100644
--- a/tests/pipelines/__snapshots__/test_create_app/test_type_nfcore_validation.svg
+++ b/tests/pipelines/__snapshots__/test_create_app/test_type_nfcore_validation.svg
@@ -19,255 +19,256 @@
font-weight: 700;
}
- .terminal-3655041559-matrix {
+ .terminal-3014688925-matrix {
font-family: Fira Code, monospace;
font-size: 20px;
line-height: 24.4px;
font-variant-east-asian: full-width;
}
- .terminal-3655041559-title {
+ .terminal-3014688925-title {
font-size: 18px;
font-weight: bold;
font-family: arial;
}
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+ .terminal-3014688925-r1 { fill: #c5c8c6 }
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+.terminal-3014688925-r20 { fill: #fea62b;font-weight: bold }
+.terminal-3014688925-r21 { fill: #a7a9ab }
+.terminal-3014688925-r22 { fill: #e2e3e3 }
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- nf-core pipelines create
+ nf-core pipelines create
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- ⭘nf-core pipelines create — Create a new pipeline with the nf-core pipeline templa…
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-Basic details
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-GitHub organisationWorkflow name
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-▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎
-▊nf-core ▎▊Pipeline Name▎
-▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
-Value error, Must be lowercase without
-punctuation.
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-A short description of your pipeline.
-
-▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎
-▊Description▎
-▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
-Value error, Cannot be left empty.
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-Name of the main author / authors
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-▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎
-▊Author(s)▎
-▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
-Value error, Cannot be left empty.
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-▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- Back Next
-▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
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- d Toggle dark mode q Quit a Toggle all
+
+
+
+ ⭘nf-core pipelines create — Create a new pipeline with the nf-core pipeline templa…
+
+
+Basic details
+
+
+
+
+GitHub organisationWorkflow name
+
+▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎
+▊nf-core ▎▊Pipeline Name▎
+▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
+Value error, Must be lowercase without
+punctuation.
+
+
+
+A short description of your pipeline.
+
+▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎
+▊Description▎
+▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
+Value error, Cannot be left empty.
+
+
+
+Name of the main author / authors
+
+▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎
+▊Author(s)▎
+▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
+Value error, Cannot be left empty.
+
+▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ Back Next
+▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+
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+ d Toggle dark mode q Quit a Toggle all