diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 89b33330..3ddc80d9 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -38,14 +38,14 @@ jobs:
       - name: Download test data
         # Download A fungal test data set that is full enough to show some real output.
         run: |
-          curl https://dp24.cog.sanger.ac.uk/TreeValTinyData.tar.gz | tar xzf -
+          curl https://tolit.cog.sanger.ac.uk/test-data/resources/treeval/TreeValTinyData.tar.gz | tar xzf -
 
       - name: Run RAPID pipeline with test data
         # Remember that you can parallelise this by using strategy.matrix
         run: |
-          nextflow run ${GITHUB_WORKSPACE} -entry RAPID -profile github_test,docker --outdir ./results-rapid
+          nextflow run ${GITHUB_WORKSPACE} -entry RAPID -profile test,docker --outdir ./results-rapid
 
       - name: Run FULL pipeline with test data
         # Remember that you can parallelise this by using strategy.matrix
         run: |
-          nextflow run ${GITHUB_WORKSPACE} -entry FULL -profile github_test,docker --outdir ./results-full
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --outdir ./results-full
diff --git a/.github/workflows/sanger_test_full.yml b/.github/workflows/sanger_test_full.yml
new file mode 100644
index 00000000..e028c6b6
--- /dev/null
+++ b/.github/workflows/sanger_test_full.yml
@@ -0,0 +1,43 @@
+name: sanger-tol LSF full size tests
+
+on:
+  push:
+    branches:
+      - main
+      - dev
+  workflow_dispatch:
+jobs:
+  run-tower:
+    name: Run LSF full size tests
+    runs-on: ubuntu-latest
+    steps:
+      - name: Sets env vars for push
+        run: |
+          echo "REVISION=${{ github.sha }}" >> $GITHUB_ENV
+        if: github.event_name == 'push'
+
+      - name: Sets env vars for workflow_dispatch
+        run: |
+          echo "REVISION=${{ github.sha }}" >> $GITHUB_ENV
+        if: github.event_name == 'workflow_dispatch'
+
+      - name: Launch workflow via tower
+        uses: seqeralabs/action-tower-launch@v2
+        with:
+          workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
+          access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
+          compute_env: ${{ secrets.TOWER_COMPUTE_ENV }}
+          revision: ${{ env.REVISION }}
+          workdir: ${{ secrets.TOWER_WORKDIR_PARENT }}/work/${{ github.repository }}/work-${{ env.REVISION }}
+          parameters: |
+            {
+              "outdir": "${{ secrets.TOWER_WORKDIR_PARENT }}/results/${{ github.repository }}/results-${{ env.REVISION }}",
+            }
+          profiles: test_full,sanger,singularity,cleanup
+
+      - uses: actions/upload-artifact@v3
+        with:
+          name: Tower debug log file
+          path: |
+            tower_action_*.log
+            tower_action_*.json
diff --git a/README.md b/README.md
index 8bc073a8..436826b3 100755
--- a/README.md
+++ b/README.md
@@ -39,7 +39,11 @@ Currently, it is advised to run the pipeline with docker or singularity as a sma
 Now, you can run the pipeline using:
 
 ```bash
-nextflow run main.nf -profile singularity --input treeval.yaml -entry {FULL|RAPID} --outdir {OUTDIR}
+# For the FULL pipeline
+nextflow run main.nf -profile singularity --input treeval.yaml --outdir {OUTDIR}
+
+# For the RAPID subset
+nextflow run main.nf -profile singularity --input treeval.yaml -entry RAPID --outdir {OUTDIR}
 ```
 
 An example treeval.yaml can be found [here](assets/local_testing/nxOscDF5033.yaml).
@@ -58,7 +62,7 @@ sanger-tol/treeval has been written by Damon-Lee Pointon (@DLBPointon), Yumi Sim
 We thank the following people for their extensive assistance in the development of this pipeline:
 
 <ul>
-  <li>@gq1 - For building the infrastructure around TreeVal</li>
+  <li>@gq1 - For building the infrastructure around TreeVal and helping with code review</li>
   <li>@ksenia-krasheninnikova - For help with C code implementation and YAML parsing</li>
   <li>@mcshane - For guidance on algorithms </li>
   <li>@muffato - For code reviews and code support</li>
diff --git a/assets/github_testing/TreeValTinyTest-Local.yaml b/assets/github_testing/TreeValTinyTest-Local.yaml
deleted file mode 100755
index 532d0fd6..00000000
--- a/assets/github_testing/TreeValTinyTest-Local.yaml
+++ /dev/null
@@ -1,31 +0,0 @@
-assembly:
-  level: scaffold
-  sample_id: grTriPseu1
-  latin_name: to_provide_taxonomic_rank
-  classT: fungi
-  asmVersion: 1
-  dbVersion: "1"
-  gevalType: DTOL
-reference_file: /nfs/treeoflife-01/teams/tola/users/dp24/treeval/TreeValTinyData/assembly/draft/grTriPseu1.fa
-assem_reads:
-  pacbio: /nfs/treeoflife-01/teams/tola/users/dp24/treeval/TreeValTinyData/genomic_data/pacbio/
-  hic: /nfs/treeoflife-01/teams/tola/users/dp24/treeval/TreeValTinyData/genomic_data/hic-arima/
-  supplementary: path
-alignment:
-  data_dir: /nfs/treeoflife-01/teams/tola/users/dp24/treeval/TreeValTinyData/gene_alignment_data/
-  common_name: "" # For future implementation (adding bee, wasp, ant etc)
-  geneset: "LaetiporusSulphureus.gfLaeSulp1"
-  #Path should end up looking like "{data_dir}{classT}/{common_name}/csv_data/{geneset}-data.csv"
-self_comp:
-  motif_len: 0
-  mummer_chunk: 10
-synteny:
-  synteny_genome_path: /nfs/treeoflife-01/teams/tola/users/dp24/treeval/TreeValTinyData/synteny/
-outdir: "NEEDS TESTING"
-intron:
-  size: "50k"
-telomere:
-  teloseq: TTAGGG
-busco:
-  lineages_path: /nfs/treeoflife-01/teams/tola/users/dp24/treeval/TreeValTinyData/busco/subset/
-  lineage: fungi_odb10
diff --git a/assets/local_testing/nxOscDF5033.yaml b/assets/local_testing/nxOscDF5033.yaml
index 8c2547c1..86ac7182 100755
--- a/assets/local_testing/nxOscDF5033.yaml
+++ b/assets/local_testing/nxOscDF5033.yaml
@@ -5,11 +5,10 @@ assembly:
   classT: nematode
   asmVersion: 1
   gevalType: DTOL
-reference_file: /lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_DF5033/assembly/draft/DF5033.hifiasm.noTelos.20211120/DF5033.noTelos.hifiasm.purged.noCont.noMito.fasta
-#/lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_DF5033/assembly/draft/DF5033.hifiasm.noTelos.20211120/DF5033.noTelos.hifiasm.purged.noCont.noMito.fasta
+reference_file: /lustre/scratch123/tol/resources/treeval/treeval-testdata/TreeValSmallData/Oscheius_DF5033/assembly/draft/DF5033.hifiasm.noTelos.20211120/DF5033.noTelos.hifiasm.purged.noCont.noMito.fasta
 assem_reads:
-  pacbio: /lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_DF5033/genomic_data/nxOscSpes1/pacbio/fasta/
-  hic: /lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_DF5033/genomic_data/nxOscSpes1/hic-arima2/full/
+  pacbio: /lustre/scratch123/tol/resources/treeval/treeval-testdata/TreeValSmallData/Oscheius_DF5033/genomic_data/nxOscSpes1/pacbio/fasta/
+  hic: /lustre/scratch123/tol/resources/treeval/treeval-testdata/TreeValSmallData/Oscheius_DF5033/genomic_data/nxOscSpes1/hic-arima2/full/
   supplementary: path
 alignment:
   data_dir: /lustre/scratch123/tol/resources/treeval/gene_alignment_data/
diff --git a/assets/local_testing/nxOscSUBSET.yaml b/assets/local_testing/nxOscSUBSET.yaml
index fcc726b1..6284a4ce 100755
--- a/assets/local_testing/nxOscSUBSET.yaml
+++ b/assets/local_testing/nxOscSUBSET.yaml
@@ -5,14 +5,14 @@ assembly:
   classT: nematode
   asmVersion: 1
   gevalType: DTOL
-reference_file: /lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_SUBSET/assembly/draft/SUBSET_genome/Oscheius_SUBSET.fasta
+reference_file: /lustre/scratch123/tol/resources/treeval/treeval-testdata/TreeValSmallData/Oscheius_SUBSET/assembly/draft/SUBSET_genome/Oscheius_SUBSET.fasta
 #/lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_DF5033/assembly/draft/DF5033.hifiasm.noTelos.20211120/DF5033.noTelos.hifiasm.purged.noCont.noMito.fasta
 assem_reads:
-  pacbio: /lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_SUBSET/genomic_data/pacbio/
-  hic: /lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_DF5033/genomic_data/nxOscSpes1/hic-arima2/subset/
+  pacbio: /lustre/scratch123/tol/resources/treeval/treeval-testdata/TreeValSmallData/Oscheius_SUBSET/genomic_data/pacbio/
+  hic: /lustre/scratch123/tol/resources/treeval/treeval-testdata/TreeValSmallData/Oscheius_DF5033/genomic_data/nxOscSpes1/hic-arima2/subset/
   supplementary: path
 alignment:
-  data_dir: /lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_SUBSET/gene_set/
+  data_dir: /lustre/scratch123/tol/resources/treeval/treeval-testdata/TreeValSmallData/Oscheius_SUBSET/gene_set/
   common_name: "" # For future implementation (adding bee, wasp, ant etc)
   geneset: "Gae_host.Gae"
   #Path should end up looking like "{data_dir}{classT}/{common_name}/csv_data/{geneset}-data.csv"
diff --git a/conf/github_test.config b/conf/github_test.config
deleted file mode 100755
index a5acbb0d..00000000
--- a/conf/github_test.config
+++ /dev/null
@@ -1,25 +0,0 @@
-/*
-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-    Nextflow config file for running minimal tests
-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-    Defines input files and everything required to run a fast and simple pipeline test.
-
-    Use as follows:
-        nextflow run sanger-tol/treeval -profile s3_test,<docker/singularity> --outdir <OUTDIR>
-
-----------------------------------------------------------------------------------------
-*/
-
-params {
-    config_profile_name        = 'GitHub FULL test'
-    config_profile_description = 'FULL Test Data for GitHub Actions test'
-
-    // Limit resources so that this can run on GitHub Actions
-    max_cpus    = 2
-    max_memory  = '6.GB'
-    max_time    = '6.h'
-
-    // Input data
-    input       = "${projectDir}/assets/github_testing/TreeValTinyTest.yaml"
-    outdir      = "TinyTest"
-}
diff --git a/conf/local_github_test.config b/conf/local_github_test.config
deleted file mode 100755
index 8544b962..00000000
--- a/conf/local_github_test.config
+++ /dev/null
@@ -1,25 +0,0 @@
-/*
-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-    Nextflow config file for running minimal tests
-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-    Defines input files and everything required to run a fast and simple pipeline test.
-
-    Use as follows:
-        nextflow run sanger-tol/treeval -profile s3_test,<docker/singularity> --outdir <OUTDIR>
-
-----------------------------------------------------------------------------------------
-*/
-
-params {
-    config_profile_name        = 'GitHub FULL test'
-    config_profile_description = 'FULL Test Data for GitHub Actions test'
-
-    // Limit resources so that this can run on GitHub Actions
-    max_cpus    = 2
-    max_memory  = '6.GB'
-    max_time    = '6.h'
-
-    // Input data
-    input       = "${projectDir}/assets/github_testing/TreeValTinyTest-Local.yaml"
-    outdir      = "TinyTest"
-}
diff --git a/conf/test.config b/conf/test.config
index c3a6bb5e..9966e48d 100755
--- a/conf/test.config
+++ b/conf/test.config
@@ -14,13 +14,15 @@
 */
 
 params {
-    config_profile_name        = 'Test profile'
-    config_profile_description = 'Minimal test dataset to check pipeline function'
+    config_profile_name        = 'GitHub FULL test'
+    config_profile_description = 'FULL Test Data for GitHub Actions test'
 
     // Limit resources so that this can run on GitHub Actions
-    max_cpus    = 6
-    max_memory  = '12.GB'
+    max_cpus    = 2
+    max_memory  = '6.GB'
     max_time    = '6.h'
 
-    input       = 'assets/local_testing/nxOscSUBSET.yaml'
+    // Input data
+    input       = "${projectDir}/assets/github_testing/TreeValTinyTest.yaml"
+    outdir      = "TinyTest"
 }
diff --git a/conf/farm_test.config b/conf/test_full.config
similarity index 95%
rename from conf/farm_test.config
rename to conf/test_full.config
index 68b15e3a..deb9aac9 100755
--- a/conf/farm_test.config
+++ b/conf/test_full.config
@@ -20,5 +20,5 @@ params {
     config_profile_description  = "FULL test dataset to check pipeline function, using a current full local dataset"
 
     input                       = "${projectDir}/assets/local_testing/nxOscDF5033.yaml"
-    output                      = nxOscDF5033
+    outdir                      = "SmallTest"
 }
diff --git a/main.nf b/main.nf
index 0d25a633..9a7b3fba 100755
--- a/main.nf
+++ b/main.nf
@@ -48,7 +48,7 @@ workflow SANGERTOL_TREEVAL_RAPID {
 //
 // WORKFLOWS: Execute named workflow for the pipeline
 //
-workflow FULL {
+workflow {
         SANGERTOL_TREEVAL ()
 }
 
diff --git a/nextflow.config b/nextflow.config
index 17035f39..924fcff7 100755
--- a/nextflow.config
+++ b/nextflow.config
@@ -60,6 +60,7 @@ try {
 
 
 profiles {
+    cleanup { cleanup = true }
     debug {
         dumpHashes             = true
         process.beforeScript   = 'echo $HOSTNAME'
@@ -151,9 +152,8 @@ profiles {
         executor.memory        = 60.GB
     }
 
-    farm_test               {   includeConfig 'conf/farm_test.config'         }
-    github_test             {   includeConfig 'conf/github_test.config'       }
-    local_github_test       {   includeConfig 'conf/local_github_test.config' }
+    test                    {   includeConfig 'conf/test.config'         }
+    test_full               {   includeConfig 'conf/test_full.config'         }
 }