Prepare release v2.0.0

Author: seppinho

README.md

@@ -183,7 +183,7 @@ A legend file is a tab-delimited file consisting of 5 columns (`id`, `position`,
 
 ### Installation
 
-- Install cloudgene3: `curl -s install.cloudgene.io | bash -s 3.0.0-rc3`
+- Install cloudgene3: `curl -s install.cloudgene.io`
 - Download latest source code zip file from releases
 - Install impuationserver2 app: `./cloudgene install imputationserver2@latest`
 - Install hapmap2 referenece panel: `./cloudgene install https://genepi.i-med.ac.at/downloads/imputation/imputation-hapmap2.zip`

cloudgene.hla.yaml

@@ -3,7 +3,7 @@ name: HLA Imputation
 description: "<p> Thank you for using our multi-ethnic HLA imputation panel, built from ~20,000 whole genome sequencing samples from five global populations.  </p> <p>
 Please cite this manuscript if you would like to include imputed results from the panel in your work: </p> <p>
 Luo, Y., Kanai, M., Choi, W., Li, X., Yamamoto, K., Ogawa, K., Gutierrez-Arcelus, M., Gregersen, P. K., Stuart, P. E., Elder, J. T., Fellay, J., Carrington, M., Haas, D. W., Guo, X., Palmer, N. D., Chen, Y.-D. I., Rotter, J. I., Taylor, K. D., Rich, S., … Raychaudhuri, S. (2020). <b> A high-resolution HLA reference panel capturing global population diversity enables multi-ethnic fine-mapping in HIV host response</b>. https://doi.org/10.1101/2020.07.16.20155606 <br><br>If your input data is <b>GRCh37/hg19</b> please ensure chromosomes are encoded without prefix  (e.g. <b>20</b>).<br>If your input data is <b>GRCh38hg38</b> please ensure chromosomes are encoded with prefix 'chr' (e.g. <b>chr20</b>). </p>"
-version: 2.0.0-rc4
+version: 2.0.0
 website: https://imputationserver.readthedocs.io
 category: Application
 submitButton: Start Imputation

cloudgene.pgs.yaml

@@ -1,7 +1,7 @@
 id: imputationserver2-pgs
 name: Polygenic Score Calculation
 description: "You can upload genotyped data and the application imputes your genotypes, performs ancestry estimation and finally calculates Polygenic Risk Scores.<br><br>No dataset at hand? No problem, download our example dataset: <a href=\"https://imputationserver.sph.umich.edu/resources/50-samples.zip\" class=\"btn btn-sm btn-secondary\" style=\"color:#ffffff !important\"><i class=\"fa fa-file\"></i> 50-samples.zip</a><br><br>"
-version: 2.0.0-rc4
+version: 2.0.0
 website: https://imputationserver.readthedocs.io
 category: Application
 submitButton: Start Calculation

cloudgene.yaml

@@ -1,7 +1,7 @@
 id: imputationserver2
 name: Genotype Imputation
 description: This is the new Michigan Imputation Server Pipeline using <a href="https://github.com/statgen/Minimac4">Minimac4</a>. Documentation can be found <a href="http://imputationserver.readthedocs.io/en/latest/">here</a>.<br><br>If your input data is <b>GRCh37/hg19</b> please ensure chromosomes are encoded without prefix  (e.g. <b>20</b>).<br>If your input data is <b>GRCh38hg38</b> please ensure chromosomes are encoded with prefix 'chr' (e.g. <b>chr20</b>).
-version: 2.0.0-rc4
+version: 2.0.0
 website: https://imputationserver.readthedocs.io
 category: Application
 submitButton: Start Imputation

nextflow.config

@@ -1,6 +1,6 @@
 manifest {
     name                                  = 'imputationserver2'
-    version                               = 'v2.0.0-rc4'
+    version                               = 'v2.0.0'
     description                           = 'Genotype Imputation Server 2'
     author                                = 'Lukas Forer & Sebastian Schönherr'
     homePage                              = 'https://github.com/genepi/imputationserver2'
@@ -96,7 +96,7 @@ profiles {
 
     docker.enabled                    = true
     singularity.enabled               = false
-    process.container                 = 'quay.io/genepi/imputationserver2:v2.0.0-rc3'
+    process.container                 = 'quay.io/genepi/imputationserver2:v2.0.0'
 
     test  {
          includeConfig 'conf/test.config'