draw 1D uncalled viz

Dockerfile

@@ -1,4 +1,4 @@
-FROM ghcr.io/pangenome/pggb:20230110163855669c4e
+FROM ghcr.io/pangenome/pggb:20230113201558a9a04c
 LABEL authors="Simon Heumos, Michael Heuer, Lukas Heumos, Erik Garrison, Andrea Guarracino" \
       description="Docker image containing all software requirements for the nf-core/pangenome pipeline"
 

assets/multiqc_config.yaml

@@ -15,6 +15,9 @@ custom_data:
   odgi_viz_depth:
     section_name: ODGI 1D visualization by node depth
     description: This shows a 1D rendering of the built pangenome graph where the paths are colored according to path depth. Using the Spectra color palette with 4 levels of path depths, white indicates no depth, while grey, red, and yellow indicate depth 1, 2, and greater than or equal to 3, respectively.
+  odgi_viz_uncalled:
+    section_name: ODGI 1D visualization by uncalled bases
+    description: This shows a 1D rendering of the built pangenome graph where the paths are colored according to the coverage of uncalled bases. The lighter the green, the higher the 'N' content of a node is.
   odgi_draw:
     section_name: ODGI 2D drawing
     description: This image shows a 2D rendering of the built pangenome graph.    
@@ -33,6 +36,8 @@ sp:
     fn: "*viz_inv_multiqc.png"
   odgi_viz_depth:
     fn: "*viz_depth_multiqc.png"
+  odgi_viz_uncalled:
+    fn: "*viz_uncalled_multiqc.png"
   testing_name:
     fn: "*draw.png"    
 ignore_images: false
@@ -50,4 +55,5 @@ custom_content:
     - odgi_viz_pos
     - odgi_viz_inv
     - odgi_viz_depth
+    - odgi_viz_uncalled
     - odgi_draw

nextflow.config

@@ -192,11 +192,13 @@ process.shell = ['/bin/bash', '-euo', 'pipefail']
 timeline {
   enabled = true
   file = "${params.tracedir}/execution_timeline.html"
+  timeline.overwrite = true
 
 }
 report {
   enabled = true
   file = "${params.tracedir}/execution_report.html"
+  report.overwrite = true
 }
 trace {
   enabled = true 

subworkflows/local/odgi/odgi_viz/main.nf

@@ -14,6 +14,7 @@ process odgiViz {
     odgi viz -i $graph -o ${graph}.viz_depth_multiqc.png -x 1500 -y 500 -a 10 -I ${params.smoothxg_consensus_prefix} -m
     odgi viz -i $graph -o ${graph}.viz_inv_multiqc.png -x 1500 -y 500 -a 10 -I ${params.smoothxg_consensus_prefix} -z
     odgi viz -i $graph -o ${graph}.viz_O_multiqc.png -x 1500 -y 500 -a 10 -I ${params.smoothxg_consensus_prefix} -O
+    odgi viz -i $graph -o ${graph}.viz_uncalled_multiqc.png -x 1500 -y 500 -a 10 -I ${params.smoothxg_consensus_prefix} -N
     """
 }