Merge pull request #15 from nservant/dev

update env

.travis.yml

@@ -14,7 +14,7 @@ before_install:
   - docker pull nfcore/hic:dev
   # Fake the tag locally so that the pipeline runs properly
   # Looks weird when this is :dev to :dev, but makes sense when testing code for a release (:dev to :1.0.1)
-  - docker tag nfcore/hic:dev nfcore/hic:dev
+  - docker tag nfcore/hic:dev nfcore/hic:1.0.0
 
 install:
   # Install Nextflow

Dockerfile

@@ -7,4 +7,4 @@ RUN apt-get update && apt-get install -y gcc g++ && apt-get clean -y
 
 COPY environment.yml /
 RUN conda env create -f /environment.yml && conda clean -a
-ENV PATH /opt/conda/envs/nf-core-hic-1.0dev/bin:$PATH
+ENV PATH /opt/conda/envs/nf-core-hic-1.0.0/bin:$PATH

environment.yml

 # You can use this file to create a conda environment for this pipeline:
 #   conda env create -f environment.yml
-name: nf-core-hic-1.0dev
+name: nf-core-hic-1.0.0
 channels:
   - conda-forge
   - bioconda
   - defaults
 dependencies:
   - python=2.7.16
-  - pip=18.1
-  - conda-forge::scipy=1.0.1
-  - conda-forge::numpy=1.9.3
-  - conda-forge::r-markdown=0.8
-  - bcbio::bx-python=0.7.3
-  - bioconda::pysam=0.14.1
-  - cooler=0.8.3
+  - pip=19.1
+  - scipy=1.2.1
+  - numpy=1.16.3
+  - r-markdown=0.9
+  - bx-python=0.8.2     
+  - pysam=0.15.2
+  - cooler=0.8.5
   - bowtie2=2.3.5
   - samtools=1.9
-  - bioconda::multiqc=1.7
+  - multiqc=1.7
   - pip:
-    - iced==0.4.2
+    - iced==0.5.1

nextflow.config

@@ -45,7 +45,7 @@ params {
 
 // Container slug. Stable releases should specify release tag!
 // Developmental code should specify :dev
-process.container = 'nfcore/hic:dev'
+process.container = 'nfcore/hic:1.0.0'
 
 // Load base.config by default for all pipelines
 includeConfig 'conf/base.config'
@@ -102,7 +102,7 @@ manifest {
   description = 'Analysis of Chromosome Conformation Capture data (Hi-C)'
   mainScript = 'main.nf'
   nextflowVersion = '>=0.32.0'
-  version = '1.0dev'
+  version = '1.0.0'
 }
 
 // Function to ensure that resource requirements don't go beyond