diff --git a/env_vars/site_upps_env_all.yml b/env_vars/site_upps_env_all.yml
index ca5a70de..5840c4b7 100644
--- a/env_vars/site_upps_env_all.yml
+++ b/env_vars/site_upps_env_all.yml
@@ -59,3 +59,7 @@ archive_upload_port: 10480
 # arteria archive verify
 archive_verify_port: 10490
 archive_verify_path_to_verify_root: "{{ static_ngi_pipeline_nobackup }}/arteria/pdc_archive_dump/{{ deployment_environment }}"
+
+# snpseq-metadata-service
+snpseq_metadata_service_port: 10555
+snpseq_metadata_runfolder_path: "{{ static_runfolder_path }}"
diff --git a/host_vars/deploy/main.yml b/host_vars/deploy/main.yml
index dd43e29d..41e87cc8 100644
--- a/host_vars/deploy/main.yml
+++ b/host_vars/deploy/main.yml
@@ -47,7 +47,12 @@ ngi_pipeline_conf: "{{ root_path }}/conf/"
 ngi_resources: "{{ root_path }}/resources/"
 
 sarek_tag: "2.7"
-sarek_dest: "{{ sw_path }}/sarek"
+sarek_dest: "{{ sw_path }}/sarek/{{ sarek_tag | replace('.', '_') }}"
+
+rnaseq_tag: "3.3"
+rnaseq_dest: "{{ sw_path }}/rnaseq/{{ rnaseq_tag | replace('.', '_') }}"
+
+demultiplex_tag: "1.4.1"
 
 # File with tools/software version in the deployed env
 deployed_tool_versions: "{{ ngi_resources }}/deployed_tools.{{ site }}.version"
diff --git a/install.yml b/install.yml
index e4ecd388..ce3d0cbb 100644
--- a/install.yml
+++ b/install.yml
@@ -93,6 +93,7 @@
     - { role: arteria-checkqc-ws, tags: arteria-checkqc }
     - { role: arteria-delivery-ws, tags: arteria-delivery }
     - { role: arteria-sequencing-report-ws, tags: arteria-sequencing-report }
+    - { role: snpseq-metadata-service, tags: snpseq-metadata-service }
     - { role: standalone_scripts, tags: standalone_scripts }
     - { role: delivery, tags: delivery }
     - { role: misc-tools, tags: misc-tools }
diff --git a/roles/arteria-checkqc-ws/defaults/main.yml b/roles/arteria-checkqc-ws/defaults/main.yml
index fd03712a..abe0fbc4 100644
--- a/roles/arteria-checkqc-ws/defaults/main.yml
+++ b/roles/arteria-checkqc-ws/defaults/main.yml
@@ -2,4 +2,4 @@ arteria_service_name: arteria-checkqc-ws
 arteria_checkqc_service_log: "{{ arteria_service_log_dir }}/{{ arteria_service_name }}.log"
 
 checkqc_repo: https://github.com/Molmed/checkQC.git
-checkqc_version: v4.0.0
+checkqc_version: v4.0.2
diff --git a/roles/arteria-sequencing-report-ws/defaults/main.yml b/roles/arteria-sequencing-report-ws/defaults/main.yml
index 79ea745b..cc03ac70 100644
--- a/roles/arteria-sequencing-report-ws/defaults/main.yml
+++ b/roles/arteria-sequencing-report-ws/defaults/main.yml
@@ -1,10 +1,12 @@
 ---
 
 seqreport_service_repo: https://github.com/arteria-project/sequencing-report-service.git
-seqreport_service_version: v1.4.2
+seqreport_service_version: v1.5.0
 
 arteria_service_name: arteria-sequencing-report-ws
 arteria_sequencing_report_wrapper: "{{ arteria_service_config_root }}/arteria_sequencing_report_wrapper.sh"
+arteria_service_pipeline_config_dir: "{{ arteria_service_config_root }}/pipeline_configs"
+arteria_service_nextflow_config_dir: "{{ arteria_service_config_root }}/nextflow_configs"
 
 seqreports_nf_profile: singularity,uppmax
 fastq_ref_genomes_path: /sw/data/fastq_screen_data/20220330/miarka/FastQ_Screen_Genomes
diff --git a/roles/arteria-sequencing-report-ws/files/nextflow_configs/demultiplex.config b/roles/arteria-sequencing-report-ws/files/nextflow_configs/demultiplex.config
new file mode 100644
index 00000000..289863f6
--- /dev/null
+++ b/roles/arteria-sequencing-report-ws/files/nextflow_configs/demultiplex.config
@@ -0,0 +1,50 @@
+/*
+~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+    Config file for defining DSL2 per module options and publishing paths
+~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+    Available keys to override module options:
+        ext.args   = Additional arguments appended to command in module.
+        ext.args2  = Second set of arguments appended to command in module (multi-tool modules).
+        ext.args3  = Third set of arguments appended to command in module (multi-tool modules).
+        ext.prefix = File name prefix for output files.
+----------------------------------------------------------------------------------------
+*/
+
+process {
+
+    withName: BCL2FASTQ {
+        ext.args = {[
+            params.ext_args ? "${params.ext_args}" : "",
+        ].join(" ").trim()}
+        publishDir = [
+            [
+                path: { "${params.outdir}/Unaligned/" },
+                pattern: "**_S[1-9]*_*.fastq.gz",
+                mode: "link",
+            ],
+            [
+                path: { "${params.outdir}/Unaligned/" },
+                pattern: "Undetermined_S0_*.fastq.gz",
+                mode: "link",
+            ],
+            [
+                // Gather and write Reports and Stats
+                path: { "${params.outdir}/Unaligned/" },
+                mode: "link",
+                pattern: "Stats",
+                saveAs: {filename -> filename.split("/")[-1] }
+            ],
+            [
+                // Gather and write InterOp files
+                path: { "${params.outdir}/InterOp" },
+                mode: "link",
+                pattern: "**.bin",
+            ],
+        ]
+    }
+
+    withName: MD5SUM {
+        publishDir = []
+    }
+}
+
diff --git a/roles/arteria-sequencing-report-ws/tasks/install.yml b/roles/arteria-sequencing-report-ws/tasks/install.yml
index e966d64e..4272faf4 100644
--- a/roles/arteria-sequencing-report-ws/tasks/install.yml
+++ b/roles/arteria-sequencing-report-ws/tasks/install.yml
@@ -39,7 +39,7 @@
   args:
     chdir: "{{ tempfolder.path }}"
   environment:
-    NXF_SINGULARITY_CACHEDIR: "{{ ngi_containers }}/seqreports"
+    NXF_SINGULARITY_CACHEDIR: "{{ ngi_containers }}/biocontainers"
     NXF_HOME: "{{ nextflow_dest }}/workfiles"
     NXF_JAVA_HOME: "{{ nextflow_env.NXF_JAVA_HOME }}"
     NXF_TEMP: "{{ tempfolder.path }}"
diff --git a/roles/arteria-sequencing-report-ws/tasks/install_config.yml b/roles/arteria-sequencing-report-ws/tasks/install_config.yml
index c1463d0d..7dc84f03 100644
--- a/roles/arteria-sequencing-report-ws/tasks/install_config.yml
+++ b/roles/arteria-sequencing-report-ws/tasks/install_config.yml
@@ -20,6 +20,35 @@
     src: checkqc.config
     dest: "{{ arteria_service_config_root }}/checkqc.config"
 
+- name: ensure {{ arteria_service_pipeline_config_dir }} exists
+  file:
+    state: directory
+    path: "{{ arteria_service_pipeline_config_dir }}"
+
+- name: deploying {{ arteria_service_name }} configs for pipelines
+  template:
+    src: "{{ item }}"
+    dest: "{{ arteria_service_pipeline_config_dir }}/{{ item | basename | splitext | first }}"
+  with_fileglob:
+    - "../templates/pipeline_configs/*.j2"
+
+- name: deploy {{ arteria_service_name }} pipeline config schema
+  copy:
+    src: "{{ arteria_service_src_path }}/config/pipeline_config/schema.json"
+    dest: "{{ arteria_service_pipeline_config_dir }}/schema.json"
+
+- name: ensure {{ arteria_service_nextflow_config_dir }} exists
+  file:
+    state: directory
+    path: "{{ arteria_service_nextflow_config_dir }}"
+
+- name: deploying {{ arteria_service_name }} nextflow configs for pipelines
+  template:
+    src: "{{ item }}"
+    dest: "{{ arteria_service_nextflow_config_dir }}/{{ item | basename }}"
+  with_fileglob:
+    - "../files/nextflow_configs/*.config"
+
 - name: Deploy arteria-delivery wrapper
   template:
     src: arteria_sequencing_report_wrapper.sh.j2
diff --git a/roles/arteria-sequencing-report-ws/templates/pipeline_configs/demultiplex.yml.j2 b/roles/arteria-sequencing-report-ws/templates/pipeline_configs/demultiplex.yml.j2
new file mode 100644
index 00000000..886ef574
--- /dev/null
+++ b/roles/arteria-sequencing-report-ws/templates/pipeline_configs/demultiplex.yml.j2
@@ -0,0 +1,26 @@
+---
+
+main_workflow_path: "{{ sw_path }}/demultiplex/{{ demultiplex_tag | replace('.', '_') }}/main.nf"
+# Note that in the following sections it is possible to do variable subsitution
+# on the following variables:
+# - {runfolder_name}
+# - {runfolder_path}
+# - {current_year}
+# - {input_samplesheet_path}
+nextflow_parameters:
+  config: "{{ arteria_service_nextflow_config_dir }}/demultiplex.config"
+  profile: "singularity,uppmax"
+environment:
+  NXF_TEMP: {{nextflow_env.NXF_TEMP}}
+  NXF_WORK: "{runfolder_path}/.nextflow"
+  NXF_SINGULARITY_CACHEDIR: {{ ngi_containers }}/biocontainers
+  NXF_ANSI_LOG: "false"
+pipeline_parameters:
+  input: "{input_samplesheet_path}"
+  outdir: "{runfolder_path}"
+  project: {{uppmax_project}}
+  demultiplexer: "bcl2fastq"
+  skip_tools: "fastp,falco,multiqc"
+input_samplesheet_content: |
+  id,samplesheet,lane,flowcell
+  {runfolder_name},{runfolder_path}/SampleSheet.csv,,{runfolder_path}
diff --git a/roles/arteria-sequencing-report-ws/templates/pipeline_configs/seqreports.yml.j2 b/roles/arteria-sequencing-report-ws/templates/pipeline_configs/seqreports.yml.j2
new file mode 100644
index 00000000..1d14c371
--- /dev/null
+++ b/roles/arteria-sequencing-report-ws/templates/pipeline_configs/seqreports.yml.j2
@@ -0,0 +1,25 @@
+---
+
+main_workflow_path: "{{arteria_service_src_path}}/seqreports/main.nf"
+# Note that in the following sections it is possible to do variable
+# substitution on the following variables:
+# - {runfolder_name}
+# - {runfolder_path}
+# - {current_year}
+# - {input_samplesheet_path}
+nextflow_parameters:
+  config: "{{arteria_service_src_path}}/seqreports/nextflow.config"
+  profile: {{seqreports_nf_profile}}
+environment:
+  NXF_TEMP: {{nextflow_env.NXF_TEMP}}
+  NXF_WORK: "{runfolder_path}/.nextflow"
+  NXF_SINGULARITY_CACHEDIR: "{{ ngi_containers }}/biocontainers"
+  NXF_ANSI_LOG: "false"
+pipeline_parameters:
+  run_folder: "{runfolder_path}"
+  project: {{uppmax_project}}
+  config_dir: "{{arteria_service_src_path}}/seqreports/config/tool_config/"
+  fastqscreen_databases: {{fastq_ref_genomes_path}}
+  checkqc_config: "{{arteria_service_config_root}}/checkqc.config"
+  result_dir: "{runfolder_path}/seqreports"
+  script_dir: "{{arteria_service_src_path}}/seqreports/bin/"
diff --git a/roles/arteria-sequencing-report-ws/templates/seqreport_app.config.j2 b/roles/arteria-sequencing-report-ws/templates/seqreport_app.config.j2
index 0719de75..21c55c5b 100644
--- a/roles/arteria-sequencing-report-ws/templates/seqreport_app.config.j2
+++ b/roles/arteria-sequencing-report-ws/templates/seqreport_app.config.j2
@@ -3,34 +3,10 @@
 
 port: {{ seqreport_service_port }}
 db_connection_string: sqlite:///{{ db_path }}/sequencing_reports.db
-reports_dir: ${DEFAULT:runfolder_path}/seqreports/
+reports_dir: "{runfolder_path}/seqreports/"
 monitored_directories:
     - {{ static_runfolder_path }}
 alembic_scripts: {{ arteria_service_src_path }}/alembic/
 alembic_log_config_path: {{ arteria_service_config_root}}/logger.config
-process_queue_check_interval: 5 # in seconds
 nextflow_log_dirs: {{ arteria_service_log_dir }}/nxf_logs
-
-nextflow_config:
-    main_workflow_path: {{ arteria_service_src_path }}/seqreports/main.nf
-    nf_config: {{ arteria_service_src_path }}/seqreports/nextflow.config
-    nf_profile: {{ seqreports_nf_profile }}
-    environment:
-        NXF_TEMP: {{ nextflow_env.NXF_TEMP }}
-        NXF_WORK: ${DEFAULT:runfolder_path}/seqreports/nextflow
-        NXF_SINGULARITY_CACHEDIR: "{{ ngi_containers }}/seqreports"
-        NXF_ANSI_LOG: false
-    # Note that in the parameters section it is possible to do variable
-    # subsitution on the following variables.
-    # loading the config.
-    # - ${DEFAULT:runfolder_name}
-    # - ${DEFAULT:runfolder_path}
-    # - ${DEFAULT:current_year}
-    parameters:
-        run_folder: ${DEFAULT:runfolder_path}
-        project: {{ uppmax_project }}
-        config_dir: {{ arteria_service_src_path }}/seqreports/config/tool_config/
-        fastqscreen_databases: {{ fastq_ref_genomes_path }}
-        checkqc_config: {{ arteria_service_config_root }}/checkqc.config
-        result_dir: ${DEFAULT:runfolder_path}/seqreports
-        script_dir: {{ arteria_service_src_path }}/seqreports/bin/
+pipeline_config_dir: {{ arteria_service_pipeline_config_dir }}
diff --git a/roles/nf-core/defaults/main.yml b/roles/nf-core/defaults/main.yml
index e5fb554f..16aaa501 100644
--- a/roles/nf-core/defaults/main.yml
+++ b/roles/nf-core/defaults/main.yml
@@ -1,6 +1,6 @@
 nf_core_env_name: nf-core-env
 nf_core_env: "{{ sw_path }}/anaconda/envs/{{ nf_core_env_name }}"
-nf_core_version: 2.7.2
+nf_core_version: 2.13.1
 nf_core_container_repo: docker://nfcore
 nf_core_vars:
   NFCORE_NO_VERSION_CHECK: 1
@@ -15,7 +15,7 @@ nf_core_vars:
 biocontainers_dirname: biocontainers
 pipelines:
   - name: rnaseq
-    release: 3.3
+    release: "{{ rnaseq_tag }}"
     container_dir: "{{ biocontainers_dirname }}"
   - name: sarek
     release: "{{ sarek_tag }}"
@@ -51,6 +51,9 @@ pipelines:
   - name: scrnaseq
     release: 2.3.0
     container_dir: "{{ biocontainers_dirname }}"
+  - name: demultiplex
+    release: "{{ demultiplex_tag }}"
+    container_dir: "{{ biocontainers_dirname }}"
 
 nf_core_delivery_readmes:
   sarek:
diff --git a/roles/nf-core/tasks/pipeline.yml b/roles/nf-core/tasks/pipeline.yml
index 195f6223..362cc118 100644
--- a/roles/nf-core/tasks/pipeline.yml
+++ b/roles/nf-core/tasks/pipeline.yml
@@ -15,18 +15,20 @@
     loop_var: cachedir
 
 - name: nf-core download {{ pipeline }} v{{ release }}
-  command: "nf-core -v
+  command: >
+    nf-core -v
     download {{ pipeline }}
+    -d
     --compress none
     --outdir {{ sw_path }}/{{ pipeline }}
     --revision {{ release }}
-    --container singularity
-    --singularity-cache-only"
+    --container-system singularity
+    --container-cache-utilisation amend
   environment: "{{ nf_core_vars }}"
   ignore_errors: true
   args:
     chdir: "{{ sw_path }}"
-    creates: "{{ sw_path }}/{{ pipeline }}"
+    creates: "{{ sw_path }}/{{ pipeline }}/{{ release | replace('.', '_') }}"
 
 - name: pull pipeline-specific images for {{ pipeline }} v{{ release }}
   command: "singularity pull --name nfcore-{{ container.0 }}-{{ release }}.{{ container.1 }}.img {{ nf_core_container_repo }}/{{ container.0 }}:{{ release }}.{{ container.1 }}"
@@ -50,7 +52,7 @@
   lineinfile:
     dest: "{{ ngi_pipeline_conf }}/{{ bash_env_script }}"
     line: >
-          alias {{ pipeline }}='nextflow run {{ sw_path }}/{{ pipeline }}/workflow/
+          alias {{ pipeline }}='nextflow run {{ sw_path }}/{{ pipeline }}/{{ release | replace('.', '_') }}/
           -profile uppmax \
           -c {{ ngi_pipeline_conf }}/nextflow_miarka_{{ site }}.config \
           -c {{ ngi_pipeline_conf }}/{{ pipeline }}_{{ site }}.config'
diff --git a/roles/ngi_pipeline/templates/miarka_ngi_config.yaml.j2 b/roles/ngi_pipeline/templates/miarka_ngi_config.yaml.j2
index af609b47..df75355c 100644
--- a/roles/ngi_pipeline/templates/miarka_ngi_config.yaml.j2
+++ b/roles/ngi_pipeline/templates/miarka_ngi_config.yaml.j2
@@ -33,7 +33,7 @@ piper:
     gatk_key: "{{ ngi_resources }}/piper/{{ gatk_key }}"
 
 sarek:
-    command: {{ sarek_dest }}/workflow/main.nf
+    command: {{ sarek_dest }}/main.nf
     tools:
       - haplotypecaller
       - snpeff
@@ -75,7 +75,7 @@ analysis:
             analysis_engine: ngi_pipeline.engines.qc_ngi
         RNA-seq:
             analysis_engine: ngi_pipeline.engines.rna_ngi
-            ngi_nf_path: {{ sw_path }}/rnaseq/workflow/
+            ngi_nf_path: {{ rnaseq_dest }}/
             sthlm_ngi_conf: {{ rna_seq_conf }}
             upps_ngi_conf: {{ rna_seq_conf }}
         wgs_germline:
diff --git a/roles/ngi_reports/defaults/main.yml b/roles/ngi_reports/defaults/main.yml
index 06987ce9..1ba6b496 100644
--- a/roles/ngi_reports/defaults/main.yml
+++ b/roles/ngi_reports/defaults/main.yml
@@ -1,7 +1,7 @@
 ---
 ngi_reports_repo: https://github.com/NationalGenomicsInfrastructure/ngi_reports.git
 ngi_reports_dest: "{{ sw_path }}/ngi_reports"
-ngi_reports_version: e09e3f720199b9875f30d4429b4bf35211479747
+ngi_reports_version: 8bfd3bbab27cb6385edd6c128ef2e480d5af774c
 ngi_reports_log: "{{ ngi_log_path }}/ngi_reports.log"
 
 ngi_mdx_outline_repo: https://github.com/NationalGenomicsInfrastructure/mdx_outline.git
diff --git a/roles/snpseq-metadata-service/defaults/main.yml b/roles/snpseq-metadata-service/defaults/main.yml
new file mode 100644
index 00000000..7fc995f5
--- /dev/null
+++ b/roles/snpseq-metadata-service/defaults/main.yml
@@ -0,0 +1,16 @@
+snpseq_metadata_env_name: snpseq_metadata
+snpseq_metadata_env_path: "{{ anaconda_path }}/envs/{{ snpseq_metadata_env_name }}"
+
+snpseq_metadata_repo: https://github.com/Molmed/snpseq_metadata.git
+snpseq_metadata_version: 2763cee
+xml_schema_source_url: ftp://ftp.ebi.ac.uk/pub/databases/ena/doc/xsd/sra_1_5
+
+snpseq_metadata_src_path: "{{ sw_path }}/metadata/snpseq_metadata"
+
+snpseq_metadata_service_repo: https://github.com/Molmed/snpseq-metadata-service.git
+snpseq_metadata_service_version: 1.1.0
+
+snpseq_metadata_service_log_dir: "{{ static_ngi_log_path }}/metadata/snpseq_metadata_service/{{ deployment_environment }}"
+snpseq_metadata_service_src_path: "{{ sw_path }}/metadata/snpseq_metadata_service"
+snpseq_metadata_service_config_root: "{{ ngi_pipeline_conf }}/metadata/snpseq_metadata_service"
+
diff --git a/roles/snpseq-metadata-service/meta/main.yml b/roles/snpseq-metadata-service/meta/main.yml
new file mode 100644
index 00000000..3a512133
--- /dev/null
+++ b/roles/snpseq-metadata-service/meta/main.yml
@@ -0,0 +1,3 @@
+dependencies:
+  - { role: anaconda, tags: anaconda }
+  - { role: setup_base_config, tags: setup_base_config }
diff --git a/roles/snpseq-metadata-service/tasks/install_config.yml b/roles/snpseq-metadata-service/tasks/install_config.yml
new file mode 100644
index 00000000..71ec6d74
--- /dev/null
+++ b/roles/snpseq-metadata-service/tasks/install_config.yml
@@ -0,0 +1,32 @@
+---
+
+- name: ensure snpseq-metadata-service conf dir exists
+  file:
+    state: directory
+    path: "{{ snpseq_metadata_service_config_root }}"
+
+- name: deploy snpseq-metadata-service app config
+  template:
+    src: snpseq_metadata_service_app.config.j2
+    dest: "{{ snpseq_metadata_service_config_root }}/app.yaml"
+
+- name: deploy snpseq-metadata-service logger config
+  template:
+    src: snpseq_metadata_service_logger.config.j2
+    dest: "{{ snpseq_metadata_service_config_root }}/logger.yaml"
+
+- name: modify uppsala's supervisord conf to set environment and program commands
+  ini_file:
+    dest: "{{ supervisord_conf }}"
+    section: program:snpseq-metadata-service-{{ deployment_environment }}
+    option: "{{ item.opt }}"
+    value: "{{ item.val }}"
+    backup: no
+  loop:
+    - opt: command
+      val: "{{ snpseq_metadata_env_path}}/bin/metadata-service -c {{ snpseq_metadata_service_config_root }}"
+    - opt: autorestart
+      val: true
+    - opt: directory
+      val: "{{ snpseq_metadata_service_log_dir }}"
+
diff --git a/roles/snpseq-metadata-service/tasks/install_package.yml b/roles/snpseq-metadata-service/tasks/install_package.yml
new file mode 100644
index 00000000..64e363bb
--- /dev/null
+++ b/roles/snpseq-metadata-service/tasks/install_package.yml
@@ -0,0 +1,26 @@
+
+- name: create virtual python env, shared with snpseq-metadata-service
+  shell: "conda create --name {{ snpseq_metadata_env_name }} python={{ python3_version }}"
+  args:
+    creates: "{{ snpseq_metadata_env_path }}"
+
+- name: get snpseq_metadata from git
+  git:
+    repo: "{{ snpseq_metadata_repo }}"
+    dest: "{{ snpseq_metadata_src_path }}"
+    version: "{{ snpseq_metadata_version }}"
+
+- name: install snpseq_metadata
+  pip:
+    name: .
+    chdir: "{{ snpseq_metadata_src_path }}"
+    executable: "{{ snpseq_metadata_env_path }}/bin/pip"
+    state: present
+    extra_args: "-U -e"
+
+- name: download XML schema
+  command: "{{ snpseq_metadata_env_path }}/bin/generate_python_models.sh {{ snpseq_metadata_env_path }}/bin/xsdata {{ xml_schema_source_url }}"
+  environment:
+    PATH: "{{ snpseq_metadata_env_path }}/bin"
+  args:
+    chdir: "{{ snpseq_metadata_src_path }}"
diff --git a/roles/snpseq-metadata-service/tasks/install_service.yml b/roles/snpseq-metadata-service/tasks/install_service.yml
new file mode 100644
index 00000000..ffb67315
--- /dev/null
+++ b/roles/snpseq-metadata-service/tasks/install_service.yml
@@ -0,0 +1,19 @@
+
+- name: create virtual python env, shared with snpseq_metadata
+  shell: "conda create --name {{ snpseq_metadata_env_name }} python={{ python3_version }}"
+  args:
+    creates: "{{ snpseq_metadata_env_path }}"
+
+- name: get snpseq-metadata-service from git
+  git:
+    repo: "{{ snpseq_metadata_service_repo }}"
+    dest: "{{ snpseq_metadata_service_src_path }}"
+    version: "{{ snpseq_metadata_service_version }}"
+
+- name: install snpseq-metadata-service
+  pip:
+    name: .
+    chdir: "{{ snpseq_metadata_service_src_path }}"
+    executable: "{{ snpseq_metadata_env_path }}/bin/pip"
+    state: present
+    extra_args: "-U"
diff --git a/roles/snpseq-metadata-service/tasks/main.yml b/roles/snpseq-metadata-service/tasks/main.yml
new file mode 100644
index 00000000..028c3ebf
--- /dev/null
+++ b/roles/snpseq-metadata-service/tasks/main.yml
@@ -0,0 +1,21 @@
+
+- block:
+  - include: install_package.yml
+  - include: install_service.yml
+  - include: install_config.yml
+
+  - name: add static folders to be created
+    set_fact:
+      static_folders: "{{ static_folders + [snpseq_metadata_runfolder_path, snpseq_metadata_service_log_dir] }}"
+
+  - name: Store tool versions in deployment
+    lineinfile:
+      dest: "{{ deployed_tool_versions }}"
+      line: "{{ item.tool }}: {{ item.ver }}"
+    loop:
+      - tool: snpseq-metadata-service
+        ver: "{{ snpseq_metadata_service_version }}"
+      - tool: snpseq_metadata
+        ver: "{{ snpseq_metadata_version }}"
+
+  when: site in ["upps"]
diff --git a/roles/snpseq-metadata-service/templates/snpseq_metadata_service_app.config.j2 b/roles/snpseq-metadata-service/templates/snpseq_metadata_service_app.config.j2
new file mode 100644
index 00000000..d58b5a96
--- /dev/null
+++ b/roles/snpseq-metadata-service/templates/snpseq_metadata_service_app.config.j2
@@ -0,0 +1,18 @@
+
+# the service will listen on this port
+port: {{ snpseq_metadata_service_port }}
+
+# the base url preceding the service endpoint
+base_url: /api/1.0
+
+# the location on the server under which runfolders are stored
+# {runfolder} and {host} are substituted at each request to snpseq-metadata-server
+datadir: "{{ snpseq_metadata_runfolder_path }}/{runfolder}"
+
+# the url where the snpseq-data service can be accessed
+# on miarka, it won't be used so let's just point back to kong
+snpseq_data_url: http://localhost:4444
+
+# the path to the snpseq_metadata python package main script
+# will be deployed in the same env as the service
+snpseq_metadata_executable: {{ snpseq_metadata_env_path }}/bin/snpseq_metadata
diff --git a/roles/snpseq-metadata-service/templates/snpseq_metadata_service_logger.config.j2 b/roles/snpseq-metadata-service/templates/snpseq_metadata_service_logger.config.j2
new file mode 100644
index 00000000..9bd5b20d
--- /dev/null
+++ b/roles/snpseq-metadata-service/templates/snpseq_metadata_service_logger.config.j2
@@ -0,0 +1,28 @@
+---
+version: 1
+
+disable_existing_loggers: False
+
+formatters:
+    simple:
+        format: "%(asctime)s - %(name)s - %(levelname)s - %(message)s"
+
+handlers:
+    console:
+        class: logging.StreamHandler
+        level: DEBUG
+        formatter: simple
+        stream: ext://sys.stdout
+
+    file_handler:
+        class: logging.handlers.RotatingFileHandler
+        level: DEBUG  # By default set to WARNING, but can be changed on runtime
+        formatter: simple
+        filename: "{{ snpseq_metadata_service_log_dir }}/snpseq_metadata_service.log"
+        maxBytes: 10485760  # 10MB
+        backupCount: 20
+        encoding: utf8
+
+root:
+    level: DEBUG
+    handlers: [console, file_handler]
diff --git a/roles/taca/defaults/main.yml b/roles/taca/defaults/main.yml
index 3ef42f77..ac20f160 100644
--- a/roles/taca/defaults/main.yml
+++ b/roles/taca/defaults/main.yml
@@ -1,7 +1,7 @@
 ---
 taca_ngi_repo: https://github.com/SciLifeLab/taca-ngi-pipeline.git
 taca_ngi_dest: "{{ sw_path }}/taca-ngi-pipeline"
-taca_ngi_version: ac0abf07b40fec8ff8b8e5918eb7fcb28c9fd3dd
+taca_ngi_version: ac821fc87e616cc27abd154fa92f9b52164b306c
 
 flowcell_parser_repo: https://github.com/SciLifeLab/flowcell_parser.git
 flowcell_parser_dest: "{{ sw_path }}/flowcell_parser"
@@ -9,7 +9,7 @@ flowcell_parser_version: cfe18abb6b758a6389a9d6aa75f1866d517dc36e
 
 taca_repo: https://github.com/SciLifeLab/TACA.git
 taca_dest: "{{ sw_path }}/TACA"
-taca_version: 802cc7867bd16227e90e1d5b90136170ec712d84
+taca_version: 073538d1fcd617d1b5a0a674ba0cdfab10071a5d
 
 ngi_pipeline_analysisdir: "{{ ngi_pipeline_workdir }}/ANALYSIS"
 ngi_pipeline_datadir: "{{ ngi_pipeline_workdir }}/DATA"
diff --git a/roles/tarzan/tasks/install_tarzan.yml b/roles/tarzan/tasks/install_tarzan.yml
index 426f73de..825fa632 100644
--- a/roles/tarzan/tasks/install_tarzan.yml
+++ b/roles/tarzan/tasks/install_tarzan.yml
@@ -41,22 +41,11 @@
     dest: "{{ tarzan_singularity_image_file_dest }}"
     checksum: "{{ tarzan_singularity_image_sha1 }}"
 
-# Couldn't get this to work properly with supervisord because
-# it demands that the program under control doesn't daemonize.
 - name: modify crontab to start kong
-  lineinfile: dest="{{ ngi_pipeline_conf }}/crontab_{{ site }}"
-              line='# restart kong if it has died for some reason'
-              backup=no
-
-- name: modify crontab to start kong
-  lineinfile: dest="{{ ngi_pipeline_conf }}/crontab_{{ site }}"
-              line='@reboot source $HOME/.bash_profile && {{ tarzan_start_script }}'
-              backup=no
-
-- name: modify uppsala's crontab to start kong
-  lineinfile: dest="{{ ngi_pipeline_conf }}/crontab_upps"
-              line='38 * * * *      source $HOME/.bash_profile && {{ tarzan_start_script }} &> /dev/null'
-              backup=no
+  lineinfile:
+    dest: "{{ ngi_pipeline_conf }}/crontab_{{ site }}"
+    line: '@reboot source $HOME/.bash_profile && {{ tarzan_start_script }} &> /dev/null'
+    backup: no
 
 - name: add static folders to be created
   set_fact:
diff --git a/roles/tarzan/templates/kong.yml.j2 b/roles/tarzan/templates/kong.yml.j2
index 0ec76c5d..c8787843 100644
--- a/roles/tarzan/templates/kong.yml.j2
+++ b/roles/tarzan/templates/kong.yml.j2
@@ -50,6 +50,14 @@ services:
       - /checkqc
       strip_path: true
 
+  - name: snpseq_metadata
+    host: localhost
+    port: {{ snpseq_metadata_service_port }}
+    routes:
+    - paths:
+      - /metadata
+      strip_path: true
+
 plugins:
   - name: key-auth
     config: