diff --git a/tests/pipelines/__snapshots__/test_create_app.ambr b/tests/pipelines/__snapshots__/test_create_app.ambr
index ee470c915c..479015359a 100644
--- a/tests/pipelines/__snapshots__/test_create_app.ambr
+++ b/tests/pipelines/__snapshots__/test_create_app.ambr
@@ -851,257 +851,257 @@
font-weight: 700;
}
- .terminal-3293903238-matrix {
+ .terminal-1136262003-matrix {
font-family: Fira Code, monospace;
font-size: 20px;
line-height: 24.4px;
font-variant-east-asian: full-width;
}
- .terminal-3293903238-title {
+ .terminal-1136262003-title {
font-size: 18px;
font-weight: bold;
font-family: arial;
}
- .terminal-3293903238-r1 { fill: #c5c8c6 }
- .terminal-3293903238-r2 { fill: #e3e3e3 }
- .terminal-3293903238-r3 { fill: #989898 }
- .terminal-3293903238-r4 { fill: #e1e1e1 }
- .terminal-3293903238-r5 { fill: #4ebf71;font-weight: bold }
- .terminal-3293903238-r6 { fill: #1e1e1e }
- .terminal-3293903238-r7 { fill: #507bb3 }
- .terminal-3293903238-r8 { fill: #e2e2e2 }
- .terminal-3293903238-r9 { fill: #808080 }
- .terminal-3293903238-r10 { fill: #dde6ed;font-weight: bold }
- .terminal-3293903238-r11 { fill: #001541 }
- .terminal-3293903238-r12 { fill: #0178d4 }
- .terminal-3293903238-r13 { fill: #454a50 }
- .terminal-3293903238-r14 { fill: #e2e3e3;font-weight: bold }
- .terminal-3293903238-r15 { fill: #000000 }
- .terminal-3293903238-r16 { fill: #14191f }
- .terminal-3293903238-r17 { fill: #e4e4e4 }
- .terminal-3293903238-r18 { fill: #7ae998 }
- .terminal-3293903238-r19 { fill: #0a180e;font-weight: bold }
- .terminal-3293903238-r20 { fill: #008139 }
- .terminal-3293903238-r21 { fill: #fea62b;font-weight: bold }
- .terminal-3293903238-r22 { fill: #a7a9ab }
- .terminal-3293903238-r23 { fill: #e2e3e3 }
+ .terminal-1136262003-r1 { fill: #c5c8c6 }
+ .terminal-1136262003-r2 { fill: #e3e3e3 }
+ .terminal-1136262003-r3 { fill: #989898 }
+ .terminal-1136262003-r4 { fill: #e1e1e1 }
+ .terminal-1136262003-r5 { fill: #4ebf71;font-weight: bold }
+ .terminal-1136262003-r6 { fill: #1e1e1e }
+ .terminal-1136262003-r7 { fill: #507bb3 }
+ .terminal-1136262003-r8 { fill: #e2e2e2 }
+ .terminal-1136262003-r9 { fill: #808080 }
+ .terminal-1136262003-r10 { fill: #dde6ed;font-weight: bold }
+ .terminal-1136262003-r11 { fill: #001541 }
+ .terminal-1136262003-r12 { fill: #0178d4 }
+ .terminal-1136262003-r13 { fill: #454a50 }
+ .terminal-1136262003-r14 { fill: #e2e3e3;font-weight: bold }
+ .terminal-1136262003-r15 { fill: #000000 }
+ .terminal-1136262003-r16 { fill: #14191f }
+ .terminal-1136262003-r17 { fill: #e4e4e4 }
+ .terminal-1136262003-r18 { fill: #7ae998 }
+ .terminal-1136262003-r19 { fill: #0a180e;font-weight: bold }
+ .terminal-1136262003-r20 { fill: #008139 }
+ .terminal-1136262003-r21 { fill: #fea62b;font-weight: bold }
+ .terminal-1136262003-r22 { fill: #a7a9ab }
+ .terminal-1136262003-r23 { fill: #e2e3e3 }
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+
- nf-core create
+ nf-core create
-
-
-
- ⭘nf-core create — Create a new pipeline with the nf-core pipeline template
-
-
- Template features
-
-
- ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- ▊▎ 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
- ▊▁▁▁▁▁▁▁▁▎the pipeline will ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
- include GitHub badges
-
- ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- ▊▎ Add configuration The pipeline will Show help
- ▊▁▁▁▁▁▁▁▁▎ filesinclude configuration ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
- profiles containing
- custom parameters
- ▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- Back Continue
- ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-
- d Toggle dark mode q Quit
+
+
+
+ ⭘nf-core create — Create a new pipeline with the nf-core pipeline template
+
+
+ Template features
+
+
+ ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ ▊▎ 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
+ ▊▁▁▁▁▁▁▁▁▎the pipeline will ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+ include GitHub badges
+
+ ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ ▊▎ Add configuration The pipeline will Show help
+ ▊▁▁▁▁▁▁▁▁▎ filesinclude configuration ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+ profiles containing
+ custom parameters
+ ▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ Back Continue
+ ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+
+ d Toggle dark mode q Quit
@@ -1405,258 +1405,258 @@
font-weight: 700;
}
- .terminal-3175764146-matrix {
+ .terminal-4117284004-matrix {
font-family: Fira Code, monospace;
font-size: 20px;
line-height: 24.4px;
font-variant-east-asian: full-width;
}
- .terminal-3175764146-title {
+ .terminal-4117284004-title {
font-size: 18px;
font-weight: bold;
font-family: arial;
}
- .terminal-3175764146-r1 { fill: #c5c8c6 }
- .terminal-3175764146-r2 { fill: #e3e3e3 }
- .terminal-3175764146-r3 { fill: #989898 }
- .terminal-3175764146-r4 { fill: #e1e1e1 }
- .terminal-3175764146-r5 { fill: #4ebf71;font-weight: bold }
- .terminal-3175764146-r6 { fill: #a5a5a5;font-style: italic; }
- .terminal-3175764146-r7 { fill: #454a50 }
- .terminal-3175764146-r8 { fill: #e2e3e3;font-weight: bold }
- .terminal-3175764146-r9 { fill: #1e1e1e }
- .terminal-3175764146-r10 { fill: #008139 }
- .terminal-3175764146-r11 { fill: #000000 }
- .terminal-3175764146-r12 { fill: #e2e2e2 }
- .terminal-3175764146-r13 { fill: #18954b }
- .terminal-3175764146-r14 { fill: #e2e2e2;font-weight: bold }
- .terminal-3175764146-r15 { fill: #969696;font-weight: bold }
- .terminal-3175764146-r16 { fill: #808080 }
- .terminal-3175764146-r17 { fill: #7ae998 }
- .terminal-3175764146-r18 { fill: #507bb3 }
- .terminal-3175764146-r19 { fill: #0a180e;font-weight: bold }
- .terminal-3175764146-r20 { fill: #dde6ed;font-weight: bold }
- .terminal-3175764146-r21 { fill: #001541 }
- .terminal-3175764146-r22 { fill: #fea62b;font-weight: bold }
- .terminal-3175764146-r23 { fill: #a7a9ab }
- .terminal-3175764146-r24 { fill: #e2e3e3 }
+ .terminal-4117284004-r1 { fill: #c5c8c6 }
+ .terminal-4117284004-r2 { fill: #e3e3e3 }
+ .terminal-4117284004-r3 { fill: #989898 }
+ .terminal-4117284004-r4 { fill: #e1e1e1 }
+ .terminal-4117284004-r5 { fill: #4ebf71;font-weight: bold }
+ .terminal-4117284004-r6 { fill: #a5a5a5;font-style: italic; }
+ .terminal-4117284004-r7 { fill: #454a50 }
+ .terminal-4117284004-r8 { fill: #e2e3e3;font-weight: bold }
+ .terminal-4117284004-r9 { fill: #1e1e1e }
+ .terminal-4117284004-r10 { fill: #008139 }
+ .terminal-4117284004-r11 { fill: #000000 }
+ .terminal-4117284004-r12 { fill: #e2e2e2 }
+ .terminal-4117284004-r13 { fill: #18954b }
+ .terminal-4117284004-r14 { fill: #e2e2e2;font-weight: bold }
+ .terminal-4117284004-r15 { fill: #969696;font-weight: bold }
+ .terminal-4117284004-r16 { fill: #808080 }
+ .terminal-4117284004-r17 { fill: #7ae998 }
+ .terminal-4117284004-r18 { fill: #507bb3 }
+ .terminal-4117284004-r19 { fill: #0a180e;font-weight: bold }
+ .terminal-4117284004-r20 { fill: #dde6ed;font-weight: bold }
+ .terminal-4117284004-r21 { fill: #001541 }
+ .terminal-4117284004-r22 { fill: #fea62b;font-weight: bold }
+ .terminal-4117284004-r23 { fill: #a7a9ab }
+ .terminal-4117284004-r24 { fill: #e2e3e3 }
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- nf-core create
+ nf-core create
-
-
-
- ⭘nf-core create — Create a new pipeline with the nf-core pipeline template
-
-
- Create GitHub repository
-
- Now that we have created a new pipeline locally, we can create a new GitHub repository and push
- the code to it.
-
-
-
-
- Your GitHub usernameYour GitHub personal access token▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- for login. Show
- ▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
- ▊GitHub username▎▊•••••••••••• ▎
- ▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
-
-
-
- The name of the organisation where the The name of the new GitHub repository
- GitHub repo will be cretaed
- ▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎
- ▊nf-core ▎▊mypipeline ▎
- ▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
-
-
- ▌⚠️ You can't create a repository directly in the nf-core organisation.
- ▌Please create the pipeline repo to an organisation where you have access or use your user
- ▌account. A core-team member will be able to transfer the repo to nf-core once the development
- ▌has started.
-
- ▌💡 Your GitHub user account will be used by default if nf-core is given as the org name.
-
-
- ▊▔▔▔▔▔▔▔▔▎Private
- ▊▎Select to make the new GitHub repo private.
- ▊▁▁▁▁▁▁▁▁▎
- ▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- Back Create GitHub repo Finish without creating a repo
- ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-
-
-
-
-
-
-
-
-
- d Toggle dark mode q Quit
+
+
+
+ ⭘nf-core create — Create a new pipeline with the nf-core pipeline template
+
+
+ Create GitHub repository
+
+ Now that we have created a new pipeline locally, we can create a new GitHub repository and push
+ the code to it.
+
+
+
+
+ Your GitHub usernameYour GitHub personal access token▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ for login. Show
+ ▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+ ▊GitHub username ▎▊•••••••••••• ▎
+ ▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
+
+
+
+ The name of the organisation where the The name of the new GitHub repository
+ GitHub repo will be cretaed
+ ▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎▊▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▎
+ ▊nf-core ▎▊mypipeline ▎
+ ▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎▊▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▎
+
+
+ ▌⚠️ You can't create a repository directly in the nf-core organisation.
+ ▌Please create the pipeline repo to an organisation where you have access or use your user
+ ▌account. A core-team member will be able to transfer the repo to nf-core once the development
+ ▌has started.
+
+ ▌💡 Your GitHub user account will be used by default if nf-core is given as the org name.
+
+
+ ▊▔▔▔▔▔▔▔▔▎Private
+ ▊▎Select to make the new GitHub repo private.
+ ▊▁▁▁▁▁▁▁▁▎
+ ▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ Back Create GitHub repo Finish without creating a repo
+ ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+
+
+
+
+
+
+
+
+
+ d Toggle dark mode q Quit
@@ -2233,255 +2233,255 @@
font-weight: 700;
}
- .terminal-2443134963-matrix {
+ .terminal-242174438-matrix {
font-family: Fira Code, monospace;
font-size: 20px;
line-height: 24.4px;
font-variant-east-asian: full-width;
}
- .terminal-2443134963-title {
+ .terminal-242174438-title {
font-size: 18px;
font-weight: bold;
font-family: arial;
}
- .terminal-2443134963-r1 { fill: #c5c8c6 }
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-
-
-
- ⭘nf-core create — Create a new pipeline with the nf-core pipeline template
-
-
- Template features
-
-
- ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- ▊▎ 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
- requried to run
- nf-core pipelines at
- different institutions
-
- ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- ▊▎ Use code lintersThe pipeline will Show help
- ▊▁▁▁▁▁▁▁▁▎include code linters ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
- and CI tests to lint
- your code: pre-commit,
- editor-config and
- prettier.
-
- ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- ▊▎ Include citationsInclude pipeline tools Show help
- ▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
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-
- d Toggle dark mode q Quit
+
+
+
+ ⭘nf-core create — Create a new pipeline with the nf-core pipeline template
+
+
+ Template features
+
+
+ ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ ▊▎ 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
+ requried to run
+ nf-core pipelines at
+ different institutions
+
+ ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ ▊▎ Use code lintersThe pipeline will Show help
+ ▊▁▁▁▁▁▁▁▁▎include code linters ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+ and CI tests to lint
+ your code: pre-commit,
+ editor-config and
+ prettier.
+
+ ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ ▊▎ Include citationsInclude pipeline tools Show help
+ ▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ Back Continue
+ ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+
+ d Toggle dark mode q Quit
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font-weight: 700;
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font-family: Fira Code, monospace;
font-size: 20px;
line-height: 24.4px;
font-variant-east-asian: full-width;
}
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font-size: 18px;
font-weight: bold;
font-family: arial;
}
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+ .terminal-1052877418-r1 { fill: #c5c8c6 }
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+ .terminal-1052877418-r5 { fill: #4ebf71;font-weight: bold }
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+ .terminal-1052877418-r10 { fill: #dde6ed;font-weight: bold }
+ .terminal-1052877418-r11 { fill: #001541 }
+ .terminal-1052877418-r12 { fill: #454a50 }
+ .terminal-1052877418-r13 { fill: #7ae998 }
+ .terminal-1052877418-r14 { fill: #e2e3e3;font-weight: bold }
+ .terminal-1052877418-r15 { fill: #0a180e;font-weight: bold }
+ .terminal-1052877418-r16 { fill: #000000 }
+ .terminal-1052877418-r17 { fill: #008139 }
+ .terminal-1052877418-r18 { fill: #fea62b;font-weight: bold }
+ .terminal-1052877418-r19 { fill: #a7a9ab }
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+ nf-core create
-
-
-
- ⭘nf-core create — Create a new pipeline with the nf-core pipeline template
-
-
- Template features
-
-
- ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- ▊▎ Use reference genomesThe pipeline will be Show help
- ▊▁▁▁▁▁▁▁▁▎configured to use a ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
- copy of the most common
- reference genome files
- from iGenomes
-
- ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
- ▊▎ Use multiqcThe pipeline will Show help
- ▊▁▁▁▁▁▁▁▁▎include the MultiQC ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
- module which generates
- an HTML report for
- quality control.
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- ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
-
- d Toggle dark mode q Quit
+
+
+
+ ⭘nf-core create — Create a new pipeline with the nf-core pipeline template
+
+
+ Template features
+
+
+ ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ ▊▎ Use reference genomesThe pipeline will be Show help
+ ▊▁▁▁▁▁▁▁▁▎configured to use a ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+ copy of the most common
+ reference genome files
+ from iGenomes
+
+ ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ ▊▎ Use multiqcThe pipeline will Show help
+ ▊▁▁▁▁▁▁▁▁▎include the MultiQC ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+ module which generates
+ an HTML report for
+ quality control.
+
+ ▊▔▔▔▔▔▔▔▔▎▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔▔
+ ▊▎ Use fastqcThe pipeline will Show help
+ ▊▁▁▁▁▁▁▁▁▎include the FastQC ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+ module which performs
+ quality control
+ analysis of input FASTQ
+ files.
+
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+ Back Continue
+ ▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁▁
+
+ d Toggle dark mode q Quit
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