Simon Anders
| Snapshot Date: 2024-12-23 13:40 -0500 (Mon, 23 Dec 2024) |
| git_url: https://git.bioconductor.org/packages/HilbertVisGUI |
| git_branch: devel |
| git_last_commit: 42a8573 |
| git_last_commit_date: 2024-10-29 09:30:32 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-12-24 11:46 -0500 (Tue, 24 Dec 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
| 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 959/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| HilbertVisGUI 1.65.0 (landing page) Simon Anders
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | ... NOT SUPPORTED ... | ||||||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | ... NOT SUPPORTED ... | ||||||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | ... NOT SUPPORTED ... | ||||||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | ERROR | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the HilbertVisGUI package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/HilbertVisGUI.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: HilbertVisGUI |
| Version: 1.65.0 |
| Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data HilbertVisGUI |
| StartedAt: 2024-12-23 23:45:33 -0000 (Mon, 23 Dec 2024) |
| EndedAt: 2024-12-23 23:45:41 -0000 (Mon, 23 Dec 2024) |
| EllapsedTime: 8.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data HilbertVisGUI
###
##############################################################################
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* checking for file ‘HilbertVisGUI/DESCRIPTION’ ... OK
* preparing ‘HilbertVisGUI’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
-----------------------------------
* installing *source* package ‘HilbertVisGUI’ ...
** using staged installation
Checking for pkg-config... /usr/bin/pkg-config
Checking for gtkmm-2.4... found: version 2.24.5
** libs
using C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -I/usr/local/include `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -fPIC -g -O2 -Wall -Werror=format-security -c R_env_prot.c -o R_env_prot.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c R_interface.cc -o R_interface.o
R_interface.cc:16:9: warning: "R_NO_REMAP" redefined
16 | #define R_NO_REMAP
| ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
In file included from /usr/include/gdkmm-2.4/gdkmm.h:34,
from /usr/include/gtkmm-2.4/gtkmm.h:89,
from display.h:7,
from R_interface.cc:8:
/usr/include/gdkmm-2.4/gdkmm/pixbufanimation.h:124:72: warning: ‘GTimeVal’ is deprecated: Use 'GDateTime' instead [-Wdeprecated-declarations]
124 | Glib::RefPtr<PixbufAnimationIter> get_iter(const GTimeVal* start_time);
| ^
In file included from /usr/include/glib-2.0/glib/galloca.h:34,
from /usr/include/glib-2.0/glib.h:32,
from /usr/include/glibmm-2.4/glibmm/thread.h:39,
from /usr/include/glibmm-2.4/glibmm.h:103,
from /usr/include/gtkmm-2.4/gtkmm.h:87:
/usr/include/glib-2.0/glib/gtypes.h:578:26: note: declared here
578 | typedef struct _GTimeVal GTimeVal GLIB_DEPRECATED_TYPE_IN_2_62_FOR(GDateTime);
| ^~~~~~~~
In file included from /usr/include/gtk-2.0/gtk/gtkobject.h:37,
from /usr/include/gtk-2.0/gtk/gtkwidget.h:36,
from /usr/include/gtk-2.0/gtk/gtkcontainer.h:35,
from /usr/include/gtk-2.0/gtk/gtkbin.h:35,
from /usr/include/gtk-2.0/gtk/gtkwindow.h:36,
from /usr/include/gtk-2.0/gtk/gtkdialog.h:35,
from /usr/include/gtk-2.0/gtk/gtkaboutdialog.h:32,
from /usr/include/gtk-2.0/gtk/gtk.h:33,
from /usr/include/gtkmm-2.4/gtkmm/box.h:44,
from /usr/include/gtkmm-2.4/gtkmm.h:91:
/usr/include/gtk-2.0/gtk/gtktypeutils.h:236:64: warning: ‘GTypeDebugFlags’ is deprecated [-Wdeprecated-declarations]
236 | void gtk_type_init (GTypeDebugFlags debug_flags);
| ^
In file included from /usr/include/glib-2.0/gobject/gobject.h:26,
from /usr/include/glib-2.0/gobject/gbinding.h:31,
from /usr/include/glib-2.0/glib-object.h:24,
from /usr/include/glibmm-2.4/glibmm/value.h:24,
from /usr/include/glibmm-2.4/glibmm/error.h:22,
from /usr/include/glibmm-2.4/glibmm/thread.h:48:
/usr/include/glib-2.0/gobject/gtype.h:729:3: note: declared here
729 | } GTypeDebugFlags GOBJECT_DEPRECATED_TYPE_IN_2_36;
| ^~~~~~~~~~~~~~~
In file included from /usr/include/gtk-2.0/gtk/gtktoolitem.h:31,
from /usr/include/gtk-2.0/gtk/gtktoolbutton.h:30,
from /usr/include/gtk-2.0/gtk/gtkmenutoolbutton.h:30,
from /usr/include/gtk-2.0/gtk/gtk.h:126:
/usr/include/gtk-2.0/gtk/gtktooltips.h:73:12: warning: ‘GTimeVal’ is deprecated: Use 'GDateTime' instead [-Wdeprecated-declarations]
73 | GTimeVal last_popdown;
| ^~~~~~~~~~~~
/usr/include/glib-2.0/glib/gtypes.h:578:26: note: declared here
578 | typedef struct _GTimeVal GTimeVal GLIB_DEPRECATED_TYPE_IN_2_62_FOR(GDateTime);
| ^~~~~~~~
In file included from R_interface.cc:10:
colorizers.h:42:9: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
42 | std::auto_ptr<DataVector> data;
| ^~~~~~~~
In file included from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/memory:78,
from /usr/include/glibmm-2.4/glibmm/variant.h:33,
from /usr/include/glibmm-2.4/glibmm/containerhandle_shared.h:23,
from /usr/include/glibmm-2.4/glibmm/arrayhandle.h:21,
from /usr/include/glibmm-2.4/glibmm.h:107:
/opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/unique_ptr.h:59:28: note: declared here
59 | template<typename> class auto_ptr;
| ^~~~~~~~
R_interface.cc: In function ‘SEXPREC* R_display_hilbert(SEXP)’:
R_interface.cc:510:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
510 | for( int i = 0; i < palette_steps->size(); i++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~~
R_interface.cc:529:20: error: format not a string literal and no format arguments [-Werror=format-security]
529 | Rf_error( buf );
| ^~~
R_interface.cc:509:11: warning: unused variable ‘palette_level’ [-Wunused-variable]
509 | double palette_level = log( REAL( max_palette_valueR )[ 0 ] ) / log( 10. ) * 4;
| ^~~~~~~~~~~~~
R_interface.cc: In member function ‘void MainWindowForRForBidir::set_palette_level(double)’:
R_interface.cc:702:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
702 | for( int i = 0; i < palette_steps->size(); i++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~~
cc1plus: some warnings being treated as errors
make: *** [/home/biocbuild/R/R/etc/Makeconf:202: R_interface.o] Error 1
ERROR: compilation failed for package ‘HilbertVisGUI’
* removing ‘/home/biocbuild/tmp/Rtmp0HAjzc/Rinst3146e42204e529/HilbertVisGUI’
-----------------------------------
ERROR: package installation failed