Hervé Pagès
| Snapshot Date: 2025-01-24 13:40 -0500 (Fri, 24 Jan 2025) |
| git_url: https://git.bioconductor.org/packages/h5mread |
| git_branch: devel |
| git_last_commit: 8aced10 |
| git_last_commit_date: 2025-01-21 16:44:07 -0500 (Tue, 21 Jan 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-01-25 15:38 -0500 (Sat, 25 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4658 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4455 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4408 |
| 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 929/2286 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| h5mread 0.99.4 (landing page) Hervé Pagès
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | ERROR | ||||||||||
|
To the developers/maintainers of the h5mread package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/h5mread.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: h5mread |
| Version: 0.99.4 |
| Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:h5mread.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings h5mread_0.99.4.tar.gz |
| StartedAt: 2025-01-25 02:20:21 -0500 (Sat, 25 Jan 2025) |
| EndedAt: 2025-01-25 02:27:01 -0500 (Sat, 25 Jan 2025) |
| EllapsedTime: 399.8 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: h5mread.Rcheck |
| Warnings: 1 |
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###
### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:h5mread.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings h5mread_0.99.4.tar.gz
###
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* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/h5mread.Rcheck'
* using R Under development (unstable) (2025-01-21 r87610 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.3.0
GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'h5mread/DESCRIPTION' ... OK
* this is package 'h5mread' version '0.99.4'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'h5mread' can be installed ... WARNING
Found the following significant warnings:
H5DSetDescriptor.c:698:38: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'hid_t' {aka 'long long int'} [-Wformat=]
H5DSetDescriptor.c:700:40: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
H5DSetDescriptor.c:740:47: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
H5DSetDescriptor.c:755:45: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
H5DSetDescriptor.c:1166:32: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'hid_t' {aka 'long long int'} [-Wformat=]
H5DSetDescriptor.c:1184:35: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'hid_t' {aka 'long long int'} [-Wformat=]
H5DSetDescriptor.c:1188:35: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'hid_t' {aka 'long long int'} [-Wformat=]
H5DSetDescriptor.c:1210:37: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
uaselection.c:53:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:55:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:64:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:68:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:75:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:78:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:199:25: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:204:25: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:204:25: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:217:37: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:217:37: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 10 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:233:37: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:288:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
uaselection.c:428:53: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
TouchedChunks.c:552:28: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
TouchedChunks.c:552:32: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
See 'E:/biocbuild/bbs-3.21-bioc/meat/h5mread.Rcheck/00install.out' for details.
* used C compiler: 'gcc.exe (GCC) 13.3.0'
* checking installed package size ... INFO
installed size is 9.2Mb
sub-directories of 1Mb or more:
extdata 2.1Mb
libs 6.6Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... NOTE
Unexported object imported by a ':::' call: 'rhdf5:::h5checktypeOrOpenLocS3'
See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... INFO
GNU make is a SystemRequirements.
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files for x64 is not available
File 'E:/biocbuild/bbs-3.21-bioc/R/library/h5mread/libs/x64/h5mread.dll':
Found '_assert', possibly from 'assert' (C)
Found '_exit', possibly from '_exit' (C)
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
h5mread 59.42 7.18 88.61
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'testthat.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 1 WARNING, 2 NOTEs
See
'E:/biocbuild/bbs-3.21-bioc/meat/h5mread.Rcheck/00check.log'
for details.
h5mread.Rcheck/00install.out
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###
### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL h5mread
###
##############################################################################
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* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'h5mread' ...
** this is package 'h5mread' version '0.99.4'
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.3.0'
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5File.c -o H5File.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c global_errmsg_buf.c -o global_errmsg_buf.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5DSetDescriptor.c -o H5DSetDescriptor.o
H5DSetDescriptor.c: In function 'print_H5TypeDescriptor':
H5DSetDescriptor.c:698:38: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'hid_t' {aka 'long long int'} [-Wformat=]
698 | Rprintf("%s * h5type_id = %ld\n", margin, h5type->h5type_id);
| ~~^ ~~~~~~~~~~~~~~~~~
| | |
| long int hid_t {aka long long int}
| %lld
H5DSetDescriptor.c:700:40: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
700 | Rprintf("%s * h5type_size = %lu\n", margin, h5type->h5type_size);
| ~~^ ~~~~~~~~~~~~~~~~~~~
| | |
| long unsigned int size_t {aka long long unsigned int}
| %llu
H5DSetDescriptor.c:740:47: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
740 | Rprintf("%s * Rtype_size = %lu\n", margin, h5type->Rtype_size);
| ~~^ ~~~~~~~~~~~~~~~~~~
| | |
| long unsigned int size_t {aka long long unsigned int}
| %llu
H5DSetDescriptor.c:755:45: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
755 | Rprintf("%s * native_type_size = %lu\n", margin,
| ~~^
| |
| long unsigned int
| %llu
756 | h5type->native_type_size);
| ~~~~~~~~~~~~~~~~~~~~~~~~
| |
| size_t {aka long long unsigned int}
H5DSetDescriptor.c: In function 'C_show_H5DSetDescriptor_xp':
H5DSetDescriptor.c:1166:32: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'hid_t' {aka 'long long int'} [-Wformat=]
1166 | Rprintf("- dset_id = %ld\n", h5dset->dset_id);
| ~~^ ~~~~~~~~~~~~~~~
| | |
| long int hid_t {aka long long int}
| %lld
H5DSetDescriptor.c:1184:35: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'hid_t' {aka 'long long int'} [-Wformat=]
1184 | Rprintf("- h5space_id = %ld\n", h5dset->h5space_id);
| ~~^ ~~~~~~~~~~~~~~~~~~
| | |
| long int hid_t {aka long long int}
| %lld
H5DSetDescriptor.c:1188:35: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'hid_t' {aka 'long long int'} [-Wformat=]
1188 | Rprintf("- h5plist_id = %ld\n", h5dset->h5plist_id);
| ~~^ ~~~~~~~~~~~~~~~~~~
| | |
| long int hid_t {aka long long int}
| %lld
H5DSetDescriptor.c:1210:37: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
1210 | Rprintf(" %lu", h5dset->h5nchunk[h5along]);
| ~~^ ~~~~~~~~~~~~~~~~~~~~~~~~~
| | |
| long unsigned int size_t {aka long long unsigned int}
| %llu
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5dimscales.c -o h5dimscales.o
In file included from h5dimscales.c:7:
H5File.h:11: warning: "__USE_MINGW_ANSI_STDIO" redefined
11 | #define __USE_MINGW_ANSI_STDIO 1
|
In file included from c:\rtools44\x86_64-w64-mingw32.static.posix\include\corecrt.h:10,
from c:\rtools44\x86_64-w64-mingw32.static.posix\include\crtdefs.h:10,
from c:\rtools44\x86_64-w64-mingw32.static.posix\include\stddef.h:7,
from c:\rtools44\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\13.3.0\include\stddef.h:1,
from E:/biocbuild/bbs-3.21-bioc/R/include/R_ext/Memory.h:36,
from E:/biocbuild/bbs-3.21-bioc/R/include/Rdefines.h:37,
from h5dimscales.h:4,
from h5dimscales.c:5:
c:\rtools44\x86_64-w64-mingw32.static.posix\include\_mingw.h:434: note: this is the location of the previous definition
434 | #define __USE_MINGW_ANSI_STDIO 0 /* was not defined so it should be 0 */
|
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c uaselection.c -o uaselection.o
In file included from uaselection.c:7:
uaselection.c: In function 'get_untrusted_elt':
uaselection.c:53:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
53 | PRINT_TO_ERRMSG_BUF("%s[%ld] is NA", what, i + 1);
| ^~~~~~~~~~~~~~~ ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:53:51: note: format string is defined here
53 | PRINT_TO_ERRMSG_BUF("%s[%ld] is NA", what, i + 1);
| ~~^
| |
| long int
| %lld
uaselection.c:53:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
53 | PRINT_TO_ERRMSG_BUF("%s[%ld] is NA", what, i + 1);
| ^~~~~~~~~~~~~~~ ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:53:51: note: format string is defined here
53 | PRINT_TO_ERRMSG_BUF("%s[%ld] is NA", what, i + 1);
| ~~^
| |
| long int
| %lld
uaselection.c:55:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
55 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is NA",
| ^~~~~~~~~~~~~~~~~~~~~
56 | what, along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:55:57: note: format string is defined here
55 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is NA",
| ~~^
| |
| long int
| %lld
uaselection.c:55:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
55 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is NA",
| ^~~~~~~~~~~~~~~~~~~~~
56 | what, along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:55:57: note: format string is defined here
55 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is NA",
| ~~^
| |
| long int
| %lld
uaselection.c:64:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
64 | PRINT_TO_ERRMSG_BUF("%s[%ld] is NA or NaN "
| ^~~~~~~~~~~~~~~~~~~~~~~
65 | "or not a finite number",
66 | what, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:64:51: note: format string is defined here
64 | PRINT_TO_ERRMSG_BUF("%s[%ld] is NA or NaN "
| ~~^
| |
| long int
| %lld
uaselection.c:64:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
64 | PRINT_TO_ERRMSG_BUF("%s[%ld] is NA or NaN "
| ^~~~~~~~~~~~~~~~~~~~~~~
65 | "or not a finite number",
66 | what, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:64:51: note: format string is defined here
64 | PRINT_TO_ERRMSG_BUF("%s[%ld] is NA or NaN "
| ~~^
| |
| long int
| %lld
uaselection.c:68:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
68 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is NA or NaN "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
69 | "or not a finite number",
70 | what, along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:68:57: note: format string is defined here
68 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is NA or NaN "
| ~~^
| |
| long int
| %lld
uaselection.c:68:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
68 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is NA or NaN "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
69 | "or not a finite number",
70 | what, along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:68:57: note: format string is defined here
68 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is NA or NaN "
| ~~^
| |
| long int
| %lld
uaselection.c:75:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
75 | PRINT_TO_ERRMSG_BUF("%s[%ld] is too large (= %e)",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
76 | what, i + 1, tmp2);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:75:51: note: format string is defined here
75 | PRINT_TO_ERRMSG_BUF("%s[%ld] is too large (= %e)",
| ~~^
| |
| long int
| %lld
uaselection.c:75:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
75 | PRINT_TO_ERRMSG_BUF("%s[%ld] is too large (= %e)",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
76 | what, i + 1, tmp2);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:75:51: note: format string is defined here
75 | PRINT_TO_ERRMSG_BUF("%s[%ld] is too large (= %e)",
| ~~^
| |
| long int
| %lld
uaselection.c:78:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
78 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is too large (= %e)",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
79 | what, along + 1, i + 1, tmp2);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:78:57: note: format string is defined here
78 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is too large (= %e)",
| ~~^
| |
| long int
| %lld
uaselection.c:78:45: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
78 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is too large (= %e)",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
79 | what, along + 1, i + 1, tmp2);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:78:57: note: format string is defined here
78 | PRINT_TO_ERRMSG_BUF("%s[[%d]][%ld] is too large (= %e)",
| ~~^
| |
| long int
| %lld
uaselection.c: In function 'set_errmsg_for_uaselection_beyond_dim':
uaselection.c:199:25: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
199 | "%s starts[[%d]][%ld] "
| ^~~~~~~~~~~~~~~~~~~~~~~
200 | "> dimension %d in array",
201 | msg, along1, i + 1, along1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:199:44: note: format string is defined here
199 | "%s starts[[%d]][%ld] "
| ~~^
| |
| long int
| %lld
uaselection.c:199:25: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
199 | "%s starts[[%d]][%ld] "
| ^~~~~~~~~~~~~~~~~~~~~~~
200 | "> dimension %d in array",
201 | msg, along1, i + 1, along1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:199:44: note: format string is defined here
199 | "%s starts[[%d]][%ld] "
| ~~^
| |
| long int
| %lld
uaselection.c:204:25: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
204 | "%s starts[[%d]][%ld] + counts[[%d]][%ld] - 1 "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
205 | "> dimension %d in array",
206 | msg, along1, i + 1, along1, i + 1, along1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:204:44: note: format string is defined here
204 | "%s starts[[%d]][%ld] + counts[[%d]][%ld] - 1 "
| ~~^
| |
| long int
| %lld
uaselection.c:204:25: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
204 | "%s starts[[%d]][%ld] + counts[[%d]][%ld] - 1 "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
205 | "> dimension %d in array",
206 | msg, along1, i + 1, along1, i + 1, along1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:204:64: note: format string is defined here
204 | "%s starts[[%d]][%ld] + counts[[%d]][%ld] - 1 "
| ~~^
| |
| long int
| %lld
uaselection.c:204:25: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
204 | "%s starts[[%d]][%ld] + counts[[%d]][%ld] - 1 "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
205 | "> dimension %d in array",
206 | msg, along1, i + 1, along1, i + 1, along1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:204:44: note: format string is defined here
204 | "%s starts[[%d]][%ld] + counts[[%d]][%ld] - 1 "
| ~~^
| |
| long int
| %lld
uaselection.c:204:25: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
204 | "%s starts[[%d]][%ld] + counts[[%d]][%ld] - 1 "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
205 | "> dimension %d in array",
206 | msg, along1, i + 1, along1, i + 1, along1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:204:64: note: format string is defined here
204 | "%s starts[[%d]][%ld] + counts[[%d]][%ld] - 1 "
| ~~^
| |
| long int
| %lld
uaselection.c: In function 'set_errmsg_for_non_strictly_ascending_uaselection':
uaselection.c:217:37: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
217 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] <= starts[[%d]][%ld]",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
218 | msg, along1, i + 1, along1, i);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:217:56: note: format string is defined here
217 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] <= starts[[%d]][%ld]",
| ~~^
| |
| long int
| %lld
uaselection.c:217:37: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
217 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] <= starts[[%d]][%ld]",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
218 | msg, along1, i + 1, along1, i);
| ~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:217:77: note: format string is defined here
217 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] <= starts[[%d]][%ld]",
| ~~^
| |
| long int
| %lld
uaselection.c:217:37: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
217 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] <= starts[[%d]][%ld]",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
218 | msg, along1, i + 1, along1, i);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:217:56: note: format string is defined here
217 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] <= starts[[%d]][%ld]",
| ~~^
| |
| long int
| %lld
uaselection.c:217:37: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
217 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] <= starts[[%d]][%ld]",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
218 | msg, along1, i + 1, along1, i);
| ~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:217:77: note: format string is defined here
217 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] <= starts[[%d]][%ld]",
| ~~^
| |
| long int
| %lld
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
221 | " + counts[[%d]][%ld]",
222 | msg, along1, i + 1, along1, i, along1, i);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:220:56: note: format string is defined here
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ~~^
| |
| long int
| %lld
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
221 | " + counts[[%d]][%ld]",
222 | msg, along1, i + 1, along1, i, along1, i);
| ~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:220:76: note: format string is defined here
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ~~^
| |
| long int
| %lld
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 10 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
221 | " + counts[[%d]][%ld]",
222 | msg, along1, i + 1, along1, i, along1, i);
| ~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
221 | " + counts[[%d]][%ld]",
222 | msg, along1, i + 1, along1, i, along1, i);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:220:56: note: format string is defined here
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ~~^
| |
| long int
| %lld
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
221 | " + counts[[%d]][%ld]",
222 | msg, along1, i + 1, along1, i, along1, i);
| ~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:220:76: note: format string is defined here
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ~~^
| |
| long int
| %lld
uaselection.c:220:37: warning: format '%ld' expects argument of type 'long int', but argument 10 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
220 | PRINT_TO_ERRMSG_BUF("%s starts[[%d]][%ld] < starts[[%d]][%ld] "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
221 | " + counts[[%d]][%ld]",
222 | msg, along1, i + 1, along1, i, along1, i);
| ~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c: In function 'get_untrusted_start':
uaselection.c:233:37: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
233 | PRINT_TO_ERRMSG_BUF("starts[[%d]][%ld] is < 1",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
234 | along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:233:53: note: format string is defined here
233 | PRINT_TO_ERRMSG_BUF("starts[[%d]][%ld] is < 1",
| ~~^
| |
| long int
| %lld
uaselection.c:233:37: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
233 | PRINT_TO_ERRMSG_BUF("starts[[%d]][%ld] is < 1",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
234 | along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:233:53: note: format string is defined here
233 | PRINT_TO_ERRMSG_BUF("starts[[%d]][%ld] is < 1",
| ~~^
| |
| long int
| %lld
uaselection.c: In function 'check_uaselection_along':
uaselection.c:288:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
288 | PRINT_TO_ERRMSG_BUF("counts[[%d]][%ld] is < 0",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
289 | along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:288:61: note: format string is defined here
288 | PRINT_TO_ERRMSG_BUF("counts[[%d]][%ld] is < 0",
| ~~^
| |
| long int
| %lld
uaselection.c:288:45: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
288 | PRINT_TO_ERRMSG_BUF("counts[[%d]][%ld] is < 0",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
289 | along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:288:61: note: format string is defined here
288 | PRINT_TO_ERRMSG_BUF("counts[[%d]][%ld] is < 0",
| ~~^
| |
| long int
| %lld
uaselection.c: In function 'check_ordered_uaselection_along':
uaselection.c:428:53: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
428 | PRINT_TO_ERRMSG_BUF("counts[[%d]][%ld] is < 0",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
429 | along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:428:69: note: format string is defined here
428 | PRINT_TO_ERRMSG_BUF("counts[[%d]][%ld] is < 0",
| ~~^
| |
| long int
| %lld
uaselection.c:428:53: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'R_xlen_t' {aka 'long long int'} [-Wformat=]
428 | PRINT_TO_ERRMSG_BUF("counts[[%d]][%ld] is < 0",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
429 | along + 1, i + 1);
| ~~~~~
| |
| R_xlen_t {aka long long int}
global_errmsg_buf.h:9:67: note: in definition of macro 'PRINT_TO_ERRMSG_BUF'
9 | snprintf(_h5mread_global_errmsg_buf(), ERRMSG_BUF_LENGTH, __VA_ARGS__)
| ^~~~~~~~~~~
uaselection.c:428:69: note: format string is defined here
428 | PRINT_TO_ERRMSG_BUF("counts[[%d]][%ld] is < 0",
| ~~^
| |
| long int
| %lld
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5mread_helpers.c -o h5mread_helpers.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5mread_startscounts.c -o h5mread_startscounts.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c TouchedChunks.c -o TouchedChunks.o
TouchedChunks.c: In function '_print_tchunk_info':
TouchedChunks.c:552:28: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
552 | Rprintf("%lu/%lu", i, all_tchunks->num_tchunks[along]);
| ~~^ ~
| | |
| | size_t {aka long long unsigned int}
| long unsigned int
| %llu
TouchedChunks.c:552:32: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
552 | Rprintf("%lu/%lu", i, all_tchunks->num_tchunks[along]);
| ~~^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| | |
| long unsigned int size_t {aka long long unsigned int}
| %llu
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5mread_index.c -o h5mread_index.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5mread_sparse.c -o h5mread_sparse.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5mread.c -o h5mread.o
In file included from h5mread.c:7:
H5File.h:11: warning: "__USE_MINGW_ANSI_STDIO" redefined
11 | #define __USE_MINGW_ANSI_STDIO 1
|
In file included from c:\rtools44\x86_64-w64-mingw32.static.posix\include\corecrt.h:10,
from c:\rtools44\x86_64-w64-mingw32.static.posix\include\crtdefs.h:10,
from c:\rtools44\x86_64-w64-mingw32.static.posix\include\stddef.h:7,
from c:\rtools44\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\13.3.0\include\stddef.h:1,
from E:/biocbuild/bbs-3.21-bioc/R/include/R_ext/Memory.h:36,
from E:/biocbuild/bbs-3.21-bioc/R/include/Rdefines.h:37,
from h5mread.h:4,
from h5mread.c:5:
c:\rtools44\x86_64-w64-mingw32.static.posix\include\_mingw.h:434: note: this is the location of the previous definition
434 | #define __USE_MINGW_ANSI_STDIO 0 /* was not defined so it should be 0 */
|
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5summarize.c -o h5summarize.o
In file included from h5summarize.c:7:
H5File.h:11: warning: "__USE_MINGW_ANSI_STDIO" redefined
11 | #define __USE_MINGW_ANSI_STDIO 1
|
In file included from c:\rtools44\x86_64-w64-mingw32.static.posix\include\corecrt.h:10,
from c:\rtools44\x86_64-w64-mingw32.static.posix\include\crtdefs.h:10,
from c:\rtools44\x86_64-w64-mingw32.static.posix\include\stddef.h:7,
from c:\rtools44\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\13.3.0\include\stddef.h:1,
from E:/biocbuild/bbs-3.21-bioc/R/include/R_ext/Memory.h:36,
from E:/biocbuild/bbs-3.21-bioc/R/include/Rdefines.h:37,
from h5summarize.h:4,
from h5summarize.c:5:
c:\rtools44\x86_64-w64-mingw32.static.posix\include\_mingw.h:434: note: this is the location of the previous definition
434 | #define __USE_MINGW_ANSI_STDIO 0 /* was not defined so it should be 0 */
|
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_init_h5mread.c -o R_init_h5mread.o
gcc -shared -s -static-libgcc -o h5mread.dll tmp.def S4Vectors_stubs.o H5File.o global_errmsg_buf.o H5DSetDescriptor.o h5dimscales.o uaselection.o h5mread_helpers.o h5mread_startscounts.o TouchedChunks.o h5mread_index.o h5mread_sparse.o h5mread.o h5summarize.o R_init_h5mread.o -LE:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/lib/x64-ucrt -lhdf5_hl -lhdf5 -lcurl -lssh2 -lssl -lcrypto -lwldap32 -lws2_32 -lcrypt32 -lsz -laec -lz -lpsapi -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-h5mread/00new/h5mread/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (h5mread)
h5mread.Rcheck/tests/testthat.Rout
R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(h5mread)
Loading required package: rhdf5
Loading required package: BiocGenerics
Loading required package: generics
Attaching package: 'generics'
The following objects are masked from 'package:base':
as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
setequal, union
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply,
mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
rank, rbind, rownames, sapply, saveRDS, table, tapply, unique,
unsplit, which.max, which.min
Loading required package: SparseArray
Loading required package: Matrix
Loading required package: MatrixGenerics
Loading required package: matrixStats
Attaching package: 'MatrixGenerics'
The following objects are masked from 'package:matrixStats':
colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
colWeightedMeans, colWeightedMedians, colWeightedSds,
colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
rowWeightedSds, rowWeightedVars
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following objects are masked from 'package:Matrix':
expand, unname
The following object is masked from 'package:utils':
findMatches
The following objects are masked from 'package:base':
I, expand.grid, unname
Loading required package: S4Arrays
Loading required package: abind
Loading required package: IRanges
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Attaching package: 'S4Arrays'
The following object is masked from 'package:abind':
abind
The following object is masked from 'package:base':
rowsum
Attaching package: 'h5mread'
The following object is masked from 'package:rhdf5':
h5ls
>
> test_check("h5mread")
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 18229 ]
══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1): 'test-uaselection.R:55:1'
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 18229 ]
>
> proc.time()
user system elapsed
107.95 18.54 134.20
h5mread.Rcheck/h5mread-Ex.timings
| name | user | system | elapsed | |
| H5File-class | 0.14 | 0.08 | 3.43 | |
| h5dim | 0.00 | 0.04 | 0.03 | |
| h5ls | 0.02 | 0.00 | 0.02 | |
| h5mread | 59.42 | 7.18 | 88.61 | |
| h5mread_from_reshaped | 0.15 | 0.00 | 0.22 | |
| h5writeDimnames | 0.85 | 0.14 | 1.63 | |