[BULK] Bulk update 191218

build-fail-blacklist

@@ -816,13 +816,18 @@ recipes/bioconductor-edger/3.12.1
 recipes/bioconductor-masigpro/1.49.4
 
 # Old package, should we still build it?
-recipes/bioconductor-org.dm.eg.db/3.3.0
+recipes/bioconductor-dnacopy/1.48.0
 recipes/bioconductor-ggbio/1.22.0
 recipes/bioconductor-limma/3.28.2
 recipes/bioconductor-limma/3.28.10
-recipes/bioconductor-dnacopy/1.48.0
-recipes/bioconductor-rgraphviz/2.13.0
+recipes/bioconductor-org.ce.eg.db/3.2.3
+recipes/bioconductor-org.ce.eg.db/3.4.1
+recipes/bioconductor-org.dm.eg.db/3.3.0
 recipes/bioconductor-qdnaseq.mm10/1.4.0
+recipes/bioconductor-rgraphviz/2.13.0
+recipes/bioconductor-ropls/1.2.14
+recipes/r-seurat/1.4.0.16
+recipes/r-speaq/1.2.1
 
 # Errors with bioconductor-skeleton
 recipes/bioconductor-mvgst
@@ -833,6 +838,7 @@ recipes/bioconductor-jaspar2018
 # new bioconductor blacklist
 recipes/bioconductor-rtandem
 recipes/bioconductor-msgfplus
+recipes/bioconductor-msgfgui
 recipes/bioconductor-hpaanalyze
 recipes/bioconductor-hilbertvisgui
 recipes/bioconductor-glad

recipes/bioconductor-biocsklearn/meta.yaml

@@ -27,6 +27,8 @@ requirements:
     - r-knitr
     - r-reticulate
     - python
+    - pandas
+    - h5py
     - scikit-learn
   run:
     - 'bioconductor-summarizedexperiment >=1.12.0,<1.13.0'
@@ -35,6 +37,8 @@ requirements:
     - r-knitr
     - r-reticulate
     - python
+    - pandas
+    - h5py
     - scikit-learn
 test:
   commands:

recipes/bioconductor-motiv/meta.yaml

@@ -36,6 +36,8 @@ requirements:
     - 'bioconductor-s4vectors >=0.20.0,<0.21.0'
     - r-base
     - r-lattice
+    - gsl
+    - openblas
   build:
     - {{ compiler('c') }}
     - {{ compiler('cxx') }}

recipes/bioconductor-rhdf5/meta.yaml

@@ -12,7 +12,7 @@ source:
     - 'https://depot.galaxyproject.org/software/bioconductor-{{ name }}/bioconductor-{{ name }}_{{ version }}_src_all.tar.gz'
   md5: 75cedfb5317f0d5e835779722a453fd7
 build:
-  number: 0
+  number: 1
   rpaths:
     - lib/R/lib/
     - lib/

recipes/bioconductor-rjmcmcnucleosomes/meta.yaml

@@ -29,6 +29,7 @@ requirements:
     - 'bioconductor-s4vectors >=0.20.0,<0.21.0'
     - r-base
     - 'r-rcpp >=0.12.5'
+    - gsl
   run:
     - 'bioconductor-biocgenerics >=0.28.0,<0.29.0'
     - 'bioconductor-biocparallel >=1.16.0,<1.17.0'
@@ -39,6 +40,7 @@ requirements:
     - 'bioconductor-s4vectors >=0.20.0,<0.21.0'
     - r-base
     - 'r-rcpp >=0.12.5'
+    - gsl
   build:
     - {{ compiler('c') }}
     - {{ compiler('cxx') }}

recipes/r-spp/meta.yaml

@@ -15,10 +15,7 @@ source:
 
 build:
   merge_build_host: True  # [win]
-
-  number: 0
-  skip: true  # [win32]
-
+  number: 1
   rpaths:
     - lib/R/lib/
     - lib/

recipes/r-wgcna/meta.yaml

@@ -1,4 +1,4 @@
-{% set version = '1.64-1' %}
+{% set version = '1.66' %}
 
 {% set posix = 'm2-' if win else '' %}
 {% set native = 'm2w64-' if win else '' %}
@@ -11,14 +11,10 @@ source:
   url:
     - {{ cran_mirror }}/src/contrib/WGCNA_{{ version }}.tar.gz
     - {{ cran_mirror }}/src/contrib/Archive/WGCNA/WGCNA_{{ version }}.tar.gz
-  sha256: 961a890cda40676ba533cd6de2b1d4f692addd16363f874c82ba8b65dd2d0db6
+  sha256: 1b4b8d2a0b7c8c096a8b47810378fbfc475ff36f66a72f89b87e24eb3ef41666
 
 build:
-  merge_build_host: True  # [win]
-
   number: 0
-  skip: true  # [win32]
-
   rpaths:
     - lib/R/lib/
     - lib/
@@ -36,40 +32,39 @@ requirements:
 
   host:
     - r-base
-    - 'bioconductor-annotationdbi >=1.42.0,<1.44.0'
-    - 'bioconductor-go.db >=3.6.0,<3.8.0'
+    - bioconductor-annotationdbi
+    - bioconductor-go.db
     - r-hmisc
     - r-rcpp >=0.11.0
     - r-doparallel
     - r-dynamictreecut >=1.62
     - r-fastcluster
     - r-foreach
-    - 'bioconductor-impute >=1.54.0,<1.56.0'
+    - bioconductor-impute
     - r-matrixstats >=0.8.1
-    - 'bioconductor-preprocesscore >=1.42.0,<1.44.0'
+    - bioconductor-preprocesscore
     - r-robust
     - r-survival
 
   run:
     - r-base
     - {{native}}gcc-libs         # [win]
-    - 'bioconductor-annotationdbi >=1.42.0,<1.44.0'
-    - 'bioconductor-go.db >=3.6.0,<3.8.0'
+    - bioconductor-annotationdbi
+    - bioconductor-go.db
     - r-hmisc
     - r-rcpp >=0.11.0
     - r-doparallel
     - r-dynamictreecut >=1.62
     - r-fastcluster
     - r-foreach
-    - 'bioconductor-impute >=1.54.0,<1.56.0'
+    - bioconductor-impute
     - r-matrixstats >=0.8.1
-    - 'bioconductor-preprocesscore >=1.42.0,<1.44.0'
+    - bioconductor-preprocesscore
     - r-robust
     - r-survival
 
 test:
   commands:
-
     - $R -e "library('WGCNA')"           # [not win]
     - "\"%R%\" -e \"library('WGCNA')\""  # [win]
 
@@ -87,11 +82,3 @@ extra:
   identifiers:
     - biotools:wgcna
     - doi:10.1186/1471-2105-9-559
-  recipe-maintainers:
-    - MathiasHaudgaard
-    - FrodePedersen
-    - ArneKr
-    - johanneskoester
-    - bgruening
-    - daler
-    - jdblischak