bug fix: duplicate links spacing, updated env and README

Dockerfile

@@ -1,9 +1,9 @@
 # Base Image
-FROM continuumio/miniconda3:4.7.10
+FROM continuumio/miniconda3:4.10.3
 
 ################## METADATA ######################
 
-LABEL base.image="miniconda3:4.7.10"
+LABEL base.image="miniconda3:4.10.3"
 LABEL version="1"
 LABEL software="mummer2circos"
 LABEL software.version="1.1"
@@ -16,11 +16,10 @@ MAINTAINER Trestan Pillonel
 ################## INSTALLATION ######################
 ENV DEBIAN_FRONTEND noninteractive
 
-RUN conda install conda=4.7.12
+RUN conda install -c conda-forge mamba
 
 COPY env.yaml ./
-RUN conda env create -f env.yaml
-RUN conda clean --all --yes
+RUN mamba env create -f env.yaml && conda clean --all --yes && echo ok2
 
 RUN conda init bash
 ENTRYPOINT ["/bin/bash"]

README.md

@@ -101,11 +101,19 @@ mummer2circos -l -r genomes/NZ_CP008827.fna -q genomes/*.fna -gb GCF_000281535_m
 - labels can not include spaces
 
 ```bash
-mummer2circos -l -r genomes/NZ_CP008827.fna -q genomes/*.fna -gb GCF_000281535_merged.gbk -b VF.faa -s GCF_000281535.depth -lf labels.txt
+mummer2circos -l -r genomes/NZ_CP008827.fna -q genomes/NZ_FO834906.fna -gb GCF_000281535_merged.gbk -b VF.faa -s GCF_000281535.depth -lf labels.txt
 ```
 
 ![Simple plot](examples/images/nucmer2circos_labels_coord.png)
 
+# show links between two genomes 
+
+```bash
+mummer2circos -r genomes/NZ_CP012745.fna -q genomes/*.fna -gb GCF_000281535_merged.gbk -b VF.faa -s GCF_000281535.depth -lf labels.txt
+```
+
+![Simple plot](examples/images/nucmer2circos_links.png)
+
 # Highlight specific ranges based on coordinate file
 
 - overlapping ranges will overlap on the figure

env.yaml

@@ -9,6 +9,7 @@ dependencies:
  - blast
  - matplotlib
  - pip
+ - libwebp=0.5
  - pip:
     - git+https://github.com/metagenlab/mummer2circos.git
     - git+https://github.com/tpillone/TPplots.git