Last updated on 2022-09-11 12:56:45 CEST.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| babelgene | 13 | ||
| clustermole | 3 | 10 | |
| msigdbr | 8 | 5 |
Current CRAN status: OK: 13
Current CRAN status: ERROR: 3, NOTE: 10
Version: 1.1.0
Check: LazyData
Result: NOTE
'LazyData' is specified without a 'data' directory
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.1.0
Check: examples
Result: ERROR
Running examples in 'clustermole-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: read_gmt
> ### Title: Read a GMT file into a data frame
> ### Aliases: read_gmt
>
> ### ** Examples
>
> gmt <- "http://software.broadinstitute.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt"
> gmt_tbl <- read_gmt(gmt)
Warning in file(con, "r") :
cannot open URL 'https://www.gsea-msigdb.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt': HTTP status was '504 Gateway Timeout'
Error in file(con, "r") :
cannot open the connection to 'http://software.broadinstitute.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt'
Calls: read_gmt -> strsplit -> readLines -> file
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.1.0
Check: tests
Result: ERROR
Running 'testthat.R' [84s/118s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(clustermole)
>
> test_check("clustermole")
[1] "Calculating ranks..."
[1] "Calculating absolute values from ranks..."
[1] "Normalizing..."
[1] "Calculating ranks..."
[1] "Calculating absolute values from ranks..."
[1] "Normalizing..."
[ FAIL 1 | WARN 1 | SKIP 0 | PASS 42 ]
== Failed tests ================================================================
-- Error (test-utils.R:3:3): read_gmt() output ---------------------------------
Error in `file(con, "r")`: cannot open the connection to 'http://software.broadinstitute.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt'
Backtrace:
x
1. \-clustermole::read_gmt(file = "http://software.broadinstitute.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt") at test-utils.R:3:2
2. +-base::strsplit(readLines(file), "\t")
3. \-base::readLines(file)
4. \-base::file(con, "r")
[ FAIL 1 | WARN 1 | SKIP 0 | PASS 42 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.1.0
Check: examples
Result: ERROR
Running examples in ‘clustermole-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: read_gmt
> ### Title: Read a GMT file into a data frame
> ### Aliases: read_gmt
>
> ### ** Examples
>
> gmt <- "http://software.broadinstitute.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt"
> gmt_tbl <- read_gmt(gmt)
Warning in file(con, "r") :
cannot open URL 'https://www.gsea-msigdb.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt': HTTP status was '502 Bad Gateway'
Error in file(con, "r") :
cannot open the connection to 'http://software.broadinstitute.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt'
Calls: read_gmt -> strsplit -> readLines -> file
Execution halted
Flavor: r-patched-linux-x86_64
Version: 1.1.0
Check: examples
Result: ERROR
Running examples in 'clustermole-Ex.R' failed
The error most likely occurred in:
> ### Name: read_gmt
> ### Title: Read a GMT file into a data frame
> ### Aliases: read_gmt
>
> ### ** Examples
>
> gmt <- "http://software.broadinstitute.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt"
> gmt_tbl <- read_gmt(gmt)
Warning in file(con, "r") :
cannot open URL 'https://www.gsea-msigdb.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt': HTTP status was '502 Bad Gateway'
Error in file(con, "r") :
cannot open the connection to 'http://software.broadinstitute.org/gsea/msigdb/supplemental/scsig.all.v1.0.symbols.gmt'
Calls: read_gmt -> strsplit -> readLines -> file
Execution halted
Flavor: r-release-windows-x86_64
Current CRAN status: NOTE: 8, OK: 5
Version: 7.5.1
Check: installed package size
Result: NOTE
installed size is 6.0Mb
sub-directories of 1Mb or more:
R 5.9Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64