Merge branch 'master' into task-output-resolver-v1

Author: pditommaso

.docusaurus_site/sidebars.js

@@ -33,6 +33,17 @@ module.exports = {
                 "working-with-files",
                 "process",
                 "workflow",
+                {
+                    type: "category",
+                    label: "Static typing",
+                    collapsed: true,
+                    link: { type: "doc", id: "static-typing" },
+                    items: [
+                        "process-typed",
+                        "workflow-typed",
+                        "typed-parameters"
+                    ]
+                },
                 "notifications",
                 "secrets",
                 "sharing",
@@ -50,17 +61,6 @@ module.exports = {
                 "modules/module-registry"
             ]
         },
-        {
-            type: "category",
-            label: "Static typing",
-            collapsed: true,
-            link: { type: "doc", id: "static-typing" },
-            items: [
-                "process-typed",
-                "workflow-typed",
-                "typed-parameters"
-            ]
-        },
         {
             type: "category",
             label: "Software dependencies",
@@ -110,8 +110,42 @@ module.exports = {
                     label: "Standard library",
                     link: { type: "doc", id: "reference/stdlib" },
                     items: [
-                        "reference/stdlib-namespaces",
-                        "reference/stdlib-types",
+                        {
+                            type: "category",
+                            label: "Namespaces",
+                            link: { type: "doc", id: "reference/stdlib-namespaces" },
+                            items: [
+                                "reference/stdlib-namespaces/global",
+                                "reference/stdlib-namespaces/channel",
+                                "reference/stdlib-namespaces/log",
+                                "reference/stdlib-namespaces/nextflow",
+                                "reference/stdlib-namespaces/workflow"
+                            ]
+                        },
+                        {
+                            type: "category",
+                            label: "Types",
+                            link: { type: "doc", id: "reference/stdlib-types" },
+                            items: [
+                                "reference/stdlib-types/bag",
+                                "reference/stdlib-types/boolean",
+                                "reference/stdlib-types/channel",
+                                "reference/stdlib-types/duration",
+                                "reference/stdlib-types/float",
+                                "reference/stdlib-types/integer",
+                                "reference/stdlib-types/iterable",
+                                "reference/stdlib-types/list",
+                                "reference/stdlib-types/map",
+                                "reference/stdlib-types/memory-unit",
+                                "reference/stdlib-types/path",
+                                "reference/stdlib-types/record",
+                                "reference/stdlib-types/set",
+                                "reference/stdlib-types/string",
+                                "reference/stdlib-types/tuple",
+                                "reference/stdlib-types/value",
+                                "reference/stdlib-types/version-number"
+                            ]
+                        },
                         "reference/stdlib-groovy"
                     ]
                 },

.docusaurus_site/src/custom.css

@@ -17,6 +17,19 @@ h5, h6 {
   width: 100%;
 }
 
+/* Sidebar indentation beyond level 2.
+   Each nested `menu__list` lives inside its parent `li`, so these margins
+   compound down the tree — every level needs the same 1rem step, not a larger
+   absolute value. Links already get 1rem at every level from the theme's `ml-4`;
+   the theme only indents categories up to level 2, so level-3+ categories sit
+   flush with their parent. Match them to the level-2 step so deeper branches
+   (e.g. Language reference > Standard library > Namespaces) nest visually. */
+.theme-doc-sidebar-item-category-level-3.menu__list-item,
+.theme-doc-sidebar-item-category-level-4.menu__list-item,
+.theme-doc-sidebar-item-category-level-5.menu__list-item {
+  margin-left: 1rem;
+}
+
 /* Make wide tables horizontally scrollable instead of overflowing the page */
 .markdown table {
   display: block;

docs/amazons3.mdx

@@ -103,5 +103,5 @@ See [AWS configuration][config-aws] for more information about advanced S3 clien
 
 
 [config-aws]: ./reference/config#aws
-[stdlib-types-path]: ./reference/stdlib-types#path
+[stdlib-types-path]: ./reference/stdlib-types/path
 [working-with-files]: ./working-with-files

docs/cache-and-resume.mdx

@@ -252,6 +252,6 @@ Nextflow now has a built-in way to compare two task runs. See the [Data lineage]
 [process-script]: ./process#script
 [process-spack]: ./reference/process#spack
 [process-stub]: ./process#stub
-[stdlib-namespaces-workflow]: ./reference/stdlib-namespaces
+[stdlib-namespaces-workflow]: ./reference/stdlib-namespaces/workflow
 [strict-syntax-page]: ./strict-syntax
 [trace-report]: ./reports#trace-file

docs/developer/nextflow.mdx

@@ -44,4 +44,4 @@ The `Session` class is the top-level representation of a Nextflow run, or "sessi
 
 [channel-factory]: ../reference/channel
 [nextflow-script]: ./nextflow.script
-[stdlib-namespaces-global]: ../reference/stdlib-namespaces#global-namespace
+[stdlib-namespaces-global]: ../reference/stdlib-namespaces/global

docs/migrations/26-04.mdx

@@ -440,7 +440,7 @@ A Platform access token with appropriate permissions is required to download non
 [process-typed-page]: ../process-typed
 [script-records]: ../script#records
 [static-typing-first-preview]: ./25-10#static-typing-preview
-[stdlib-listDirectory]: ../reference/stdlib-types#listdirectory---iterablepath
+[stdlib-listDirectory]: ../reference/stdlib-types/path#listdirectory---iterablepath
 [strict-syntax-page]: ../strict-syntax
 [workflow-typed-page]: ../workflow-typed
 [workflow-typed-params]: ../typed-parameters

docs/process.mdx

@@ -1353,7 +1353,7 @@ process hello {
 [script-closure]: ./script#closures
 [script-tuples]: ./script#tuples
 [static-typing-page]: ./static-typing
-[stdlib-types-path]: ./reference/stdlib-types#path
+[stdlib-types-path]: ./reference/stdlib-types/path
 [strict-syntax-page]: ./strict-syntax
 [string-interpolation]: ./script#string-interpolation
 [syntax-function]: ./reference/syntax#function

docs/reference/config.mdx

@@ -1784,11 +1784,9 @@ The `seqera.executor` scope configures the Seqera scheduler service for the [Seq
 
 The following settings are available:
 
-The following settings are available:
-
 ###### `seqera.executor.autoLabels`
 
-When `true`, automatically adds workflow metadata labels to the session with the `nextflow.io/` prefix (default: `false`). The following labels are added: `projectName`, `userName`, `runName`, `sessionId`, `resume`, `revision`, `commitId`, `repository`, `manifestName`, `runtimeVersion`. A `seqera.io/runId` label is also added, computed as a SipHash of the session ID and run name.
+When `true`, automatically adds workflow metadata labels to the session with the `nextflow.io/` prefix (default: `false`). The following labels are added: `projectName`, `userName`, `runName`, `sessionId`, `resume`, `revision`, `commitId`, `repository`, `manifestName`, `runtimeVersion`. A `seqera.io/runId` label is also added, computed as a SipHash of the session ID and run name. The `userName` label reports the Seqera Platform user that submitted the run, falling back to the OS user running the Nextflow launcher when no Platform identity is available.
 
 ###### `seqera.executor.computeEnvId`
 
@@ -1874,6 +1872,10 @@ The maximum number of spot retry attempts before falling back to on-demand. Only
 
 The instance provisioning mode. Can be `'spot'`, `'ondemand'`, or `'spotFirst'`.
 
+###### `seqera.executor.schedulingRequirement.maxCpusPerUser`
+
+The maximum number of concurrent vCPUs a single user may consume across all of their runs on this compute environment (default: no limit). A task requesting more `cpus` than this cap fails instead of being queued.
+
 ###### `seqera.executor.retryPolicy.delay`
 
 The initial delay when a failing HTTP request is retried (default: `'450ms'`).
@@ -2629,7 +2631,7 @@ workflow.output.tags = [FOO'hello', BAR'world']
 [seqera-executor]: ../executor#seqera
 [sharing-page]: ../sharing
 [slurm-executor]: ../executor#slurm
-[stdlib-types-versionnumber]: ./stdlib-types#versionnumber
+[stdlib-types-versionnumber]: ./stdlib-types/version-number
 [timeline-report]: ../reports#execution-timeline
 [trace-report]: ../reports#trace-file
 [wave-page]: ../wave

docs/reference/process.mdx

@@ -1831,9 +1831,9 @@ See also: [cpus](#cpus), [disk](#disk), [memory](#memory), [queue](#queue), [dyn
 [sge-executor]: ../executor#sge
 [slurm-executor]: ../executor#slurm
 [spack-page]: ../spack
-[stdlib-namespaces-workflow]: ./stdlib-namespaces#workflow
-[stdlib-types-duration]: ./stdlib-types#duration
-[stdlib-types-memoryunit]: ./stdlib-types#memoryunit
+[stdlib-namespaces-workflow]: ./stdlib-namespaces/workflow
+[stdlib-types-duration]: ./stdlib-types/duration
+[stdlib-types-memoryunit]: ./stdlib-types/memory-unit
 [task-directive-values]: ../process#using-task-directive-values
 [trace-report]: ../reports#trace-file
 [tracing-page]: ../reports

docs/reference/semantics.mdx

@@ -9,7 +9,7 @@ The *semantics* of the Nextflow language are the meaning and behavior of each la
 
 ## Values
 
-Every expression in Nextflow produces a *value*, and every value has a [type](#types) that determines the operations it supports. This section describes the kinds of values in the language and how they behave. See the [Types][stdlib-types] reference for the full set of operations available on each type, and [Syntax][syntax-page] for the grammar of each literal.
+Every expression in Nextflow produces a *value*, and every value has a [type](#types) that determines the operations it supports. This section describes the kinds of values in the language and how they behave. Each kind of value links to its type reference, which describes the full set of available operations. See [Syntax][syntax-page] for the grammar of each literal.
 
 ### Booleans
 
@@ -901,7 +901,7 @@ The entry workflow of an included script is ignored. This allows the same script
 
 ## Types
 
-Every value in Nextflow has a *type*, which determines the set of operations that can be performed on it. The available types are described in the [Types][stdlib-types] reference.
+Every value in Nextflow has a *type*, which determines the set of operations that can be performed on it. The available types are described in [Values](#values).
 
 Nextflow supports two styles of typing:
 
@@ -1029,18 +1029,17 @@ A value is also cast *implicitly* in the following situations:
 [process-error-strategy]: ./process#errorstrategy
 [process-page]: ../process
 [script-page]: ../script
-[stdlib-error]: ./stdlib-namespaces
-[stdlib-types]: ./stdlib-types
-[stdlib-types-float]: ./stdlib-types#float
-[stdlib-types-integer]: ./stdlib-types#integer
-[stdlib-types-iterable]: ./stdlib-types#iterablee
-[stdlib-types-bag]: ./stdlib-types#bage
-[stdlib-types-list]: ./stdlib-types#liste
-[stdlib-types-map]: ./stdlib-types#mapkv
-[stdlib-types-record]: ./stdlib-types#record
-[stdlib-types-set]: ./stdlib-types#sete
-[stdlib-types-string]: ./stdlib-types#string
-[stdlib-types-tuple]: ./stdlib-types#tuple
+[stdlib-error]: ./stdlib-namespaces/global
+[stdlib-types-float]: ./stdlib-types/float
+[stdlib-types-integer]: ./stdlib-types/integer
+[stdlib-types-iterable]: ./stdlib-types/iterable
+[stdlib-types-bag]: ./stdlib-types/bag
+[stdlib-types-list]: ./stdlib-types/list
+[stdlib-types-map]: ./stdlib-types/map
+[stdlib-types-record]: ./stdlib-types/record
+[stdlib-types-set]: ./stdlib-types/set
+[stdlib-types-string]: ./stdlib-types/string
+[stdlib-types-tuple]: ./stdlib-types/tuple
 [syntax-operators]: ./syntax#binary-expressions
 [syntax-page]: ./syntax
 [syntax-precedence]: ./syntax#precedence