Shian Su
| Snapshot Date: 2024-03-27 14:00:18 -0400 (Wed, 27 Mar 2024) |
| git_url: https://git.bioconductor.org/packages/scPipe |
| git_branch: devel |
| git_last_commit: 225347e |
| git_last_commit_date: 2023-10-24 22:41:56 -0400 (Tue, 24 Oct 2023) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-03-28 11:38:29 -0400 (Thu, 28 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4708 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4446 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4471 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4426 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 1889/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| scPipe 2.3.1 (landing page) Shian Su
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | ERROR | ERROR | skipped | skipped | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the scPipe package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/scPipe.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: scPipe |
| Version: 2.3.1 |
| Command: chmod a+r scPipe -R && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data scPipe |
| StartedAt: 2024-03-27 22:06:58 -0400 (Wed, 27 Mar 2024) |
| EndedAt: 2024-03-27 22:07:21 -0400 (Wed, 27 Mar 2024) |
| EllapsedTime: 22.7 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
###
### chmod a+r scPipe -R && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data scPipe
###
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* checking for file 'scPipe/DESCRIPTION' ... OK
* preparing 'scPipe':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
-----------------------------------
* installing *source* package 'scPipe' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.2.0'
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
using C++11
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.19-bioc/R/library/zlibbioc/include" -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'F:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.19-bioc/R/library/Rhtslib/include' -I'F:/biocbuild/bbs-3.19-bioc/R/library/zlibbioc/include' -I'F:/biocbuild/bbs-3.19-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FragmentThread.cpp -o FragmentThread.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.19-bioc/R/library/zlibbioc/include" -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'F:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.19-bioc/R/library/Rhtslib/include' -I'F:/biocbuild/bbs-3.19-bioc/R/library/zlibbioc/include' -I'F:/biocbuild/bbs-3.19-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FragmentUtils.cpp -o FragmentUtils.o
In file included from FragmentUtils.cpp:1:
Fragments.h:42:9: error: 'int32_t' does not name a type
42 | int32_t start; // 1
| ^~~~~~~
Fragments.h:39:1: note: 'int32_t' is defined in header '<cstdint>'; did you forget to '#include <cstdint>'?
38 | #include <map>
+++ |+#include <cstdint>
39 |
Fragments.h:43:9: error: 'int32_t' does not name a type
43 | int32_t end; // 2
| ^~~~~~~
Fragments.h:43:9: note: 'int32_t' is defined in header '<cstdint>'; did you forget to '#include <cstdint>'?
FragmentUtils.cpp: In function 'std::string FragToString(FragmentStruct, bool, bool, bool, bool)':
FragmentUtils.cpp:13:49: error: 'struct FragmentStruct' has no member named 'start'
13 | << (start ? std::to_string(frag.start) : "")
| ^~~~~
FragmentUtils.cpp:15:47: error: 'struct FragmentStruct' has no member named 'end'
15 | << (end ? std::to_string(frag.end) : "")
| ^~~
FragmentUtils.cpp: In function 'FragmentStruct StringToFrag(std::string)':
FragmentUtils.cpp:45:9: error: could not convert '{chrom, start, end, s, true, 0}' from '<brace-enclosed initializer list>' to 'FragmentStruct'
45 | };
| ^
| |
| <brace-enclosed initializer list>
make: *** [Makevars.win:20: FragmentUtils.o] Error 1
ERROR: compilation failed for package 'scPipe'
* removing 'F:/biocbuild/bbs-3.19-bioc/tmpdir/RtmpGSkp7G/Rinst2e6854ba5c09/scPipe'
-----------------------------------
ERROR: package installation failed