Updated docs and removed resource limits from test_full

Plant-Food-Research-Open · Nov 4, 2024 · d98384a · d98384a
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diff --git a/conf/test_full.config b/conf/test_full.config
@@ -10,14 +10,6 @@
 ----------------------------------------------------------------------------------------
 */
 
-process {
-    resourceLimits = [
-        cpus: 10,
-        memory: '32.GB',
-        time: '6.h'
-    ]
-}
-
 params {
     config_profile_name         = 'Full test profile'
     config_profile_description  = 'Full test dataset to check pipeline function'

diff --git a/docs/usage.md b/docs/usage.md
@@ -129,7 +129,7 @@ The data for these examples comes from: [umd.edu](https://obj.umiacs.umd.edu/mar
 All the modules have been tested to work on a single machine with 10 CPUs + 32 GBs of memory, except NCBI FCS GX and Kraken2. Their minimum requirements are:
 
 - NCBI FCS GX: 1 CPU + 512 GBs memory
-- Kraken2: 1 CPU + 200 GBs memory
+- Kraken2: 1 CPU + 250 GBs memory
 
 ## Running the pipeline
 

diff --git a/local_assemblyqc b/local_assemblyqc
@@ -17,6 +17,7 @@ nextflow run \
     -profile docker,test_full \
     -resume \
     $stub \
+    -c ../nxf-config/resources.config \
     --ncbi_fcs_gx_skip false \
     --ncbi_fcs_gx_db_path ../dbs/gxdb/test \
     --busco_download_path ../dbs/busco \