update with erroneous work

Signed-off-by: vsoch <vsoch@users.noreply.github.com>
rse-ops · Nov 23, 2022 · a23d4e4 · a23d4e4
1 parent 7c7a3ba
commit a23d4e4
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diff --git a/nextflow/ml-hyperopt/Dockerfile b/nextflow/ml-hyperopt/Dockerfile
@@ -26,7 +26,7 @@ COPY ./setup.sh ./
 RUN /bin/bash setup.sh
 
 # Install nextflow from source (since Flux not in release yet)
-RUN git clone --depth 1 --branch fix/flux-executor-output https://github.com/researchapps/nextflow /nextflow && \
+RUN git clone --depth 1 https://github.com/nextflow-io/nextflow /nextflow && \
     cd /nextflow && \
     make compile && make pack && make install && \
     # This finishes getting some deps

diff --git a/nextflow/ml-hyperopt/README.md b/nextflow/ml-hyperopt/README.md
@@ -22,11 +22,13 @@ profiles {
     flux {
         process.executor = 'flux'
         process.conda = "$baseDir/conda.yml"
-        process.terminal_output = true
+        flux {
+            terminalOutput = true
+        }
     }
 ```
 
-Note that `process.terminal_output = true` is needed for flux to be able to see the log output!
+Note that `process.terminalOutput = true` is needed for flux to be able to see the log output!
 
 ## Running the Workflow
 

diff --git a/nextflow/ml-hyperopt/nextflow.config b/nextflow/ml-hyperopt/nextflow.config
@@ -44,7 +44,6 @@ params {
     outdir = 'results'
 }
 
-
 /*
  * Execution profiles for different environments.
  */
@@ -61,7 +60,7 @@ profiles {
     flux {
         process.conda = "$baseDir/conda.yml"
         process.executor = 'flux'
-        process.terminal_output = true
+        flux.terminalOutput = true
     }
 
     slurm {