change targene version to v0.11.1 in docs

TARGENE · Nov 8, 2024 · 49d412a · 49d412a
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diff --git a/docs/src/examples/allofus.md b/docs/src/examples/allofus.md
@@ -54,7 +54,7 @@ Here we have not specified any value for `ESTIMATORS_CONFIG`, and so the default
 Then TarGene can then be run on the AoU Researcher Workbench as follows:
 
 ```bash
-nextflow run https://github.com/TARGENE/targene-pipeline -r v0.12.0 -profile gls,allofus
+nextflow run https://github.com/TARGENE/targene-pipeline -r v0.11.1 -profile gls,allofus
 ```
 
 By default, this will generate results in the `results/` directory in your `Cloud Analysis Terminal`. Once complete, you can upload these to your Workspace bucket using the following command:

diff --git a/docs/src/examples/gwas.md b/docs/src/examples/gwas.md
@@ -52,5 +52,5 @@ Finally, the `ESTIMATORS_CONFIG = "wtmle--glm"` defines the estimation strategy.
 The GWAS can then be run as follows:
 
 ```bash
-nextflow run https://github.com/TARGENE/targene-pipeline -r v0.12.0 -profile local
+nextflow run https://github.com/TARGENE/targene-pipeline -r v0.11.1 -profile local
 ```
diff --git a/docs/src/examples/interactions.md b/docs/src/examples/interactions.md
@@ -55,5 +55,5 @@ params {
 As usual, the pipeline can then be run as follows:
 
 ```bash
-nextflow run https://github.com/TARGENE/targene-pipeline -r v0.12.0 -profile local
+nextflow run https://github.com/TARGENE/targene-pipeline -r v0.11.1 -profile local
 ```
diff --git a/docs/src/examples/phewas.md b/docs/src/examples/phewas.md
@@ -46,5 +46,5 @@ params {
 And the command-line to be run:
 
 ```bash
-nextflow run https://github.com/TARGENE/targene-pipeline -r v0.12.0 -profile local
+nextflow run https://github.com/TARGENE/targene-pipeline -r v0.11.1 -profile local
 ```
diff --git a/docs/src/overview.md b/docs/src/overview.md
@@ -10,7 +10,7 @@ nextflow run https://github.com/TARGENE/targene-pipeline/ -r TARGENE_VERSION -en
 
 where:
 
-- `TARGENE_VERSION` is the latest TarGene version, e.g. `v0.12.0`
+- `TARGENE_VERSION` is the latest TarGene version, e.g. `v0.11.1`
 - `WORKFLOW_NAME` is any of the [TarGene workflows](@ref "Project Configuration")
 - `P` is an optional [Nextflow profile](https://www.nextflow.io/docs/latest/config.html) describing the computing platform (see [Platform Configuration](@ref)).
 

diff --git a/docs/src/simulations/null_simulation.md b/docs/src/simulations/null_simulation.md
@@ -11,7 +11,7 @@ The goal of the Null Generating Process is to result in the theoretical null hyp
 To run the null simulation, the `NULL_SIMULATION` entry should be added to the Nextflow command-line as follows
 
 ```bash
-nextflow run https://github.com/TARGENE/targene-pipeline/ -r v0.12.0 -entry NULL_SIMULATION
+nextflow run https://github.com/TARGENE/targene-pipeline/ -r v0.11.1 -entry NULL_SIMULATION
 ```
 
 ## Output

diff --git a/docs/src/simulations/realistic_simulation.md b/docs/src/simulations/realistic_simulation.md
@@ -23,7 +23,7 @@ The second requirement for the simulation to be realistic is that the density es
 To run the null simulation, the `REALISTIC_SIMULATION` entry should be added to the Nextflow command-line as follows
 
 ```bash
-nextflow run https://github.com/TARGENE/targene-pipeline/ -r v0.12.0 -entry REALISTIC_SIMULATION
+nextflow run https://github.com/TARGENE/targene-pipeline/ -r v0.11.1 -entry REALISTIC_SIMULATION
 ```
 
 ## Output

diff --git a/docs/src/targene/overview.md b/docs/src/targene/overview.md
@@ -17,7 +17,7 @@ An overview of the workflow is presented in the following diagram.
 ## Example Run Command
 
 ```bash
-nextflow run https://github.com/TARGENE/targene-pipeline/ -r v0.12.0 -profile local -resume
+nextflow run https://github.com/TARGENE/targene-pipeline/ -r v0.11.1 -profile local -resume
 ```
 
 We now describe step by step how to setup a TarGene run configuration.