[med-svn] r24421 - in trunk/packages/R/r-bioc-000-dependency-scheme: . 3.5
Andreas Tille
tille at moszumanska.debian.org
Thu Oct 19 20:21:14 UTC 2017
Author: tille
Date: 2017-10-19 20:21:13 +0000 (Thu, 19 Oct 2017)
New Revision: 24421
Added:
trunk/packages/R/r-bioc-000-dependency-scheme/3.5/
trunk/packages/R/r-bioc-000-dependency-scheme/3.5/BioC_3.5-dependency-tree.ditaa
Removed:
trunk/packages/R/r-bioc-000-dependency-scheme/3.5/BioC_3.4-dependency-tree.ditaa
Modified:
trunk/packages/R/r-bioc-000-dependency-scheme/3.5/Makefile
Log:
Dependency scheme for version 3.5
Deleted: trunk/packages/R/r-bioc-000-dependency-scheme/3.5/BioC_3.4-dependency-tree.ditaa
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.4/BioC_3.4-dependency-tree.ditaa 2017-10-19 20:20:24 UTC (rev 24420)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.5/BioC_3.4-dependency-tree.ditaa 2017-10-19 20:21:13 UTC (rev 24421)
@@ -1,96 +0,0 @@
- +-------+ +------------+
- | edger | | cummerbund |
- +-------+ +------------+
- ^ ^
- | |
- +---+---+ +------------+ +--------+ +---+--+
- | limma | | hilbertvis | | qvalue | | gviz |
- +-------+ +------------+ +--------+ +------+
- ^ ^
- : |
- : +-----------+ +------+-----+
- +------+------+ | ensembldb +-------------------------->| biovizbase |
- |cAAA go.db | +-----------+ +------+-----+
- +-------------+ ^ ^
- | |
- +-------+-------+ +----------+--------+
- +------------------------------------------------------------------>| annotationhub | | variantannotation |
- | +---------------+ +-------------------+
- | ^ ^ ^ ^
- | | | | |
- | | | +------------+----+ +-+---------+
- | | | | genomicfeatures | | bsgenome |
- +------------+-----------+ +--------------+ | | +-----------------+ +-----------+
- | interactivedisplaybase | | altcdfenvs | | | ^ ^ ^
- +------------------------+ +--------------+ | | | | |
- ^ ^ ^ ^ | | | +--+-------+--+
- | | | | | | | | rtracklayer |
- | +------------------------+ | | +-------------------------------------+ | | +-------------+
- | | | | | | | ^
- | | +-----------++ | | | +-------------+ |
- | | | makecdfenv | | | +-----------+ | | +----------+--------+
- | | +------------+ | | +-------------------->| shortread |<----------|---------------+ genomicalignments |
- | | ^ | | | +-----------+ | | +-------------------+
- | | | | | | | | ^ ^
- | | | | | | | | | |
- | | | | | | | | +-----------+--+ +--------+-------------+
- | | | +---------------------+ +------------------------------------>| rsamtools | | summarizedexperiment |
- | | | | | | | | | +--------------+ +----------------------+
- | | | | | | | | | ^ ^: ^ ^ ^
- | | | | | | | | | | |: : | |
- | | | | | | | +=====|=======|=========|=========|:======+ | |
- | | | | | | | : | | | |: | |
- | | +-------+--+ | | +--+-----+---+ +--------+---+ | +-----+---+ | |: | |
- | | | affy |<-----------+ | | biostrings | | annotate | | | biomart | | |: | |
- | | +----------+ | | | +------------+ +------------+ | +---------+ | |: | |
- | | ^ ^ ^ | | | ^ ^ | ^ | |: | |
- | | | | | | | | | | | | | |: | |
- | | +----------------+ | ++--------+ | | | | +--+-----+----+-+ +--------+------+ |: | |
- | | | preprocesscore | | | affyio | | | | | | annotationdbi | | genomicranges +--|:-----------+ |
- | | +----------------+ | +---------+ | | | | +---------------+ +---------------+ |: |
- | | | | | | | ^ ^ ^ ^ |: |
- | | | | | | | | | | | |: |
- | | ++--------------+-+ | | +---------|-----------------+ | | | |: |
- | | | biocinstaller | | | | | | | | |: |
- | | +-----------------+ | | | | +----------------------|--------+ | |: |
- | | | | | | | | | |: |
- | | | | | +---+---+-+ +-+-----------++ |: |
- | | | | | | xvector | | genomeinfodb | |: |
- | | | | | +---------+ +--------------+ |: |
- | | | | | ^ ^ |: |
- | | | | | | | |: |
- | ++-----------+ +----------+ | | | +---+-----+ | |: |
- | | hypergraph | | multtest | | | | | iranges +-------------------------+ |: |
- | +------------+ +----------+ | | | +-----+---+ |: |
- | ^ ^ | | | ^ : |: |
- | | | +-+--+--+-+ | : |: |
- | | +--------------+ biobase +-------|-:--------------------------------------------------|:---------------+
- | | +---------+ | v |v
- | +---+---+ ^ +---+-------+ +----------+---+
- | | graph |<-----------------------------+ | +----->| s4vectors | | biocparallel |
- | +-------+ | | | +-----------+ +--------------+
- | | | | ^
- | | | | |
- | | | | +---------------------------------------------------+
- | | | | |
- | +--+--+--+---+-+ +----------+
- +------------------------------------------+ biocgenerics +------------------------------------------------------------------>| snpstats |
- +--------------+ +----------+
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
Copied: trunk/packages/R/r-bioc-000-dependency-scheme/3.5/BioC_3.5-dependency-tree.ditaa (from rev 24420, trunk/packages/R/r-bioc-000-dependency-scheme/3.4/BioC_3.4-dependency-tree.ditaa)
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.5/BioC_3.5-dependency-tree.ditaa (rev 0)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.5/BioC_3.5-dependency-tree.ditaa 2017-10-19 20:21:13 UTC (rev 24421)
@@ -0,0 +1,96 @@
+ +-------+ +------------+
+ | edger | | cummerbund |
+ +-------+ +------------+
+ ^ ^
+ | |
+ +---+---+ +------------+ +--------+ +---+--+
+ | limma | | hilbertvis | | qvalue | | gviz |
+ +-------+ +------------+ +--------+ +------+
+ ^ ^
+ : |
+ : +---------------+ +------+-----+
+ +------+------+ | ensembldb +---------------------->| biovizbase |
+ |cAAA go.db | +---------------+ +------+-----+
+ +-------------+ ^ ^
+ | |
+ +--------------+ +-------+-------+ +-+----------------+ +----------+--------+
+ | protgenerics +------------------------------>| annotationhub |<-----+ annotationfilter | | variantannotation |
+ +--------------+ +---------------+ +------------------+ +-------------------+
+ ^ ^ ^ | ^ ^
+ | | | | | |
+ +-------------------------------------------------------------+ | | | +------------+----+ +-+---------+
+ | | | | | genomicfeatures | | bsgenome |
+ +------------+-----------+ +--------------+ | | | +-----------------+ +-----------+
+ | interactivedisplaybase | | altcdfenvs | | | | ^ ^ ^
+ +------------------------+ +--------------+ | | | | | |
+ ^ ^ ^ ^ | | | | +--+-------+--+
+ | | | | | | | | | rtracklayer |
+ | +------------------------+ | | +-------------------------------+ +-------+ | | +-------------+
+ | | | | | | | | ^
+ | | +-----------++ | | | +-------------+ |
+ | | | makecdfenv | | | +-----------+ | | | +----------+--------+
+ | | +------------+ | | +-------------------->| shortread |<----------|---|-----------+ genomicalignments |
+ | | ^ | | | +-----------+ | | | +-------------------+
+ | | | | | | | | | ^ ^
+ | | | | | | | | | | |
+ | | | | | | | | | +-----------+--+ +--------+-------------+
+ | | | +---------------------+ +------------------------------------>| rsamtools | | summarizedexperiment |
+ | | | | | | | | | | +--------------+ +----------------------+
+ | | | | | | | | | +--+ ^ ^: ^ ^ ^
+ | | | | | | | | | | | |: : | |
+ | | | | | | | +=====|=======|======|==|=========|:======+ | |
+ | | | | | | | : | | | | |: | |
+ | | +-------+--+ | | +--+-----+---+ +--------+---+ | +-----+---+ | | |: | |
+ | | | affy |<-----------+ | | biostrings | | annotate | | | biomart | | | |: | |
+ | | +----------+ | | | +------------+ +------------+ | +---------+ | | |: | |
+ | | ^ ^ ^ | | | ^ ^ | ^ | | |: | |
+ | | | | | | | | | | | | | | |: | |
+ | | +----------------+ | ++--------+ | | | | +--+-----+----+-+ +-----+--+------+ |: | |
+ | | | preprocesscore | | | affyio | | | | | | annotationdbi | | genomicranges +--|:-----------+ |
+ | | +----------------+ | +---------+ | | | | +---------------+ +---------------+ |: |
+ | | | | | | | ^ ^ ^ ^ |: |
+ | | | | | | | | | | | |: |
+ | | ++--------------+-+ | | +---------|-----------------+ | | | |: |
+ | | | biocinstaller | | | | | | | | |: |
+ | | +-----------------+ | | | | +----------------------|--------+ | |: |
+ | | | | | | | | | |: |
+ | | | | | +---+---+-+ +-+-----------++ |: |
+ | | | | | | xvector | | genomeinfodb | |: |
+ | | | | | +---------+ +--------------+ |: |
+ | | | | | ^ ^ |: |
+ | | | | | | | |: |
+ | ++-----------+ +----------+ | | | +---+-----+ | |: |
+ | | hypergraph | | multtest | | | | | iranges +-------------------------+ |: |
+ | +------------+ +----------+ | | | +-----+---+ |: |
+ | ^ ^ | | | ^ : |: |
+ | | | +-+--+--+-+ | : |: |
+ | | +--------------+ biobase +-------|-:--------------------------------------------------|:---------------+
+ | | +---------+ | v |v
+ | +---+---+ ^ +---+-------+ +----------+---+
+ | | graph |<-----------------------------+ | +----->| s4vectors | | biocparallel |
+ | +-------+ | | | +-----------+ +--------------+
+ | | | | ^
+ | | | | |
+ | | | | +---------------------------------------------------+
+ | | | | |
+ | +--+--+--+---+-+ +----------+
+ +------------------------------------------+ biocgenerics +------------------------------------------------------------------>| snpstats |
+ +--------------+ +----------+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
Modified: trunk/packages/R/r-bioc-000-dependency-scheme/3.5/Makefile
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.4/Makefile 2017-10-19 20:20:24 UTC (rev 24420)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.5/Makefile 2017-10-19 20:21:13 UTC (rev 24421)
@@ -1,6 +1,6 @@
#!/usr/bin/make -f
-NAME:=BioC_3.4-dependency-tree
+NAME:=BioC_3.5-dependency-tree
all: png
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