Jan Janecka
| Snapshot Date: 2024-11-19 13:40 -0500 (Tue, 19 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/chromDraw |
| git_branch: RELEASE_3_20 |
| git_last_commit: 1adfc2e |
| git_last_commit_date: 2024-10-29 09:57:35 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-11-20 12:07 -0500 (Wed, 20 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4481 |
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4479 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4359 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4539 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
| 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 345/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| chromDraw 2.36.0 (landing page) Jan Janecka
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | ||||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the chromDraw package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/chromDraw.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: chromDraw |
| Version: 2.36.0 |
| Command: /home/biocbuild/R/R/bin/R CMD INSTALL chromDraw |
| StartedAt: 2024-11-19 20:35:31 -0000 (Tue, 19 Nov 2024) |
| EndedAt: 2024-11-19 20:36:42 -0000 (Tue, 19 Nov 2024) |
| EllapsedTime: 71.6 seconds |
| RetCode: 0 |
| Status: OK |
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD INSTALL chromDraw
###
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* installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’
* installing *source* package ‘chromDraw’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (conda-forge gcc 14.2.0-1) 14.2.0’
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDraw.cpp -o chromDraw.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/Board.cpp -o libBoard/src/Board.o
In file included from ./libBoard/include/board/Tools.h:102,
from ./libBoard/include/board/Shapes.h:51,
from ./libBoard/include/Board.h:51,
from libBoard/src/Board.cpp:43:
In function 'void LibBoard::secured_ctime(char*, const time_t*, size_t)',
inlined from 'void LibBoard::Board::saveEPS(const char*, double, double, double) const' at libBoard/src/Board.cpp:760:18:
./libBoard/include/board/Tools.ih:27:10: warning: 'char* strncpy(char*, const char*, size_t)' specified bound 255 equals destination size [-Wstringop-truncation]
27 | strncpy( str, ctime(t), count );
| ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/Color.cpp -o libBoard/src/Color.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/PSFonts.cpp -o libBoard/src/PSFonts.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/Path.cpp -o libBoard/src/Path.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/Rect.cpp -o libBoard/src/Rect.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/ShapeList.cpp -o libBoard/src/ShapeList.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/Shapes.cpp -o libBoard/src/Shapes.o
In file included from ./libBoard/include/board/Rect.h:46,
from libBoard/src/Shapes.cpp:42:
In copy constructor 'LibBoard::Point::Point(const LibBoard::Point&)',
inlined from 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)' at libBoard/src/Shapes.cpp:725:39:
./libBoard/include/board/Point.h:71:40: warning: using a dangling pointer to an unnamed temporary [-Wdangling-pointer=]
71 | Point( const Point & other ):x(other.x),y(other.y) { }
| ~~~~~~^
./libBoard/include/board/Point.h: In member function 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)':
./libBoard/include/board/Point.h:238:21: note: unnamed temporary defined here
238 | return Point(*this).rotate( angle, center );
| ^
In copy constructor 'LibBoard::Point::Point(const LibBoard::Point&)',
inlined from 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)' at libBoard/src/Shapes.cpp:725:39:
./libBoard/include/board/Point.h:71:51: warning: using a dangling pointer to an unnamed temporary [-Wdangling-pointer=]
71 | Point( const Point & other ):x(other.x),y(other.y) { }
| ~~~~~~^
./libBoard/include/board/Point.h: In member function 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)':
./libBoard/include/board/Point.h:238:21: note: unnamed temporary defined here
238 | return Point(*this).rotate( angle, center );
| ^
In copy constructor 'LibBoard::Point::Point(const LibBoard::Point&)',
inlined from 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)' at libBoard/src/Shapes.cpp:724:39:
./libBoard/include/board/Point.h:71:40: warning: using a dangling pointer to an unnamed temporary [-Wdangling-pointer=]
71 | Point( const Point & other ):x(other.x),y(other.y) { }
| ~~~~~~^
./libBoard/include/board/Point.h: In member function 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)':
./libBoard/include/board/Point.h:238:21: note: unnamed temporary defined here
238 | return Point(*this).rotate( angle, center );
| ^
In copy constructor 'LibBoard::Point::Point(const LibBoard::Point&)',
inlined from 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)' at libBoard/src/Shapes.cpp:724:39:
./libBoard/include/board/Point.h:71:51: warning: using a dangling pointer to an unnamed temporary [-Wdangling-pointer=]
71 | Point( const Point & other ):x(other.x),y(other.y) { }
| ~~~~~~^
./libBoard/include/board/Point.h: In member function 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)':
./libBoard/include/board/Point.h:238:21: note: unnamed temporary defined here
238 | return Point(*this).rotate( angle, center );
| ^
In copy constructor 'LibBoard::Point::Point(const LibBoard::Point&)',
inlined from 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)' at libBoard/src/Shapes.cpp:724:39:
./libBoard/include/board/Point.h:71:40: warning: '<unnamed>.LibBoard::Point::x' is used uninitialized [-Wuninitialized]
71 | Point( const Point & other ):x(other.x),y(other.y) { }
| ~~~~~~^
./libBoard/include/board/Point.h: In member function 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)':
./libBoard/include/board/Point.h:238:21: note: '<anonymous>' declared here
238 | return Point(*this).rotate( angle, center );
| ^
In copy constructor 'LibBoard::Point::Point(const LibBoard::Point&)',
inlined from 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)' at libBoard/src/Shapes.cpp:724:39:
./libBoard/include/board/Point.h:71:51: warning: '<unnamed>.LibBoard::Point::y' is used uninitialized [-Wuninitialized]
71 | Point( const Point & other ):x(other.x),y(other.y) { }
| ~~~~~~^
./libBoard/include/board/Point.h: In member function 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)':
./libBoard/include/board/Point.h:238:21: note: '<anonymous>' declared here
238 | return Point(*this).rotate( angle, center );
| ^
In copy constructor 'LibBoard::Point::Point(const LibBoard::Point&)',
inlined from 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)' at libBoard/src/Shapes.cpp:725:39:
./libBoard/include/board/Point.h:71:40: warning: '<unnamed>.LibBoard::Point::x' is used uninitialized [-Wuninitialized]
71 | Point( const Point & other ):x(other.x),y(other.y) { }
| ~~~~~~^
./libBoard/include/board/Point.h: In member function 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)':
./libBoard/include/board/Point.h:238:21: note: '<anonymous>' declared here
238 | return Point(*this).rotate( angle, center );
| ^
In copy constructor 'LibBoard::Point::Point(const LibBoard::Point&)',
inlined from 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)' at libBoard/src/Shapes.cpp:725:39:
./libBoard/include/board/Point.h:71:51: warning: '<unnamed>.LibBoard::Point::y' is used uninitialized [-Wuninitialized]
71 | Point( const Point & other ):x(other.x),y(other.y) { }
| ~~~~~~^
./libBoard/include/board/Point.h: In member function 'virtual LibBoard::Ellipse& LibBoard::Ellipse::rotate(double, const LibBoard::Point&)':
./libBoard/include/board/Point.h:238:21: note: '<anonymous>' declared here
238 | return Point(*this).rotate( angle, center );
| ^
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/Tools.cpp -o libBoard/src/Tools.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c libBoard/src/Transforms.cpp -o libBoard/src/Transforms.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/canvas.cpp -o chromDrawCPP/canvas.o
chromDrawCPP/canvas.cpp: In member function 'void canvas::lin_drawRectangleMarkSign(int, ELocationOnChromosome, int)':
chromDrawCPP/canvas.cpp:369:68: warning: 'coordinate_y' may be used uninitialized [-Wmaybe-uninitialized]
369 | sheet.drawRectangle(last_x-0.5*sizefactor*MARK_WIDTHSIZE1, coordinate_y+0.5*sizefactor*MARK_HEIGHTSIZE1, sizefactor*MARK_WIDTHSIZE1, sizefactor*MARK_HEIGHTSIZE1);
| ^~~~~~~~~~~~
chromDrawCPP/canvas.cpp:320:15: note: 'coordinate_y' was declared here
320 | float coordinate_y;
| ^~~~~~~~~~~~
chromDrawCPP/canvas.cpp: In member function 'void canvas::lin_drawEllipseMarkSign(int, ELocationOnChromosome, int)':
chromDrawCPP/canvas.cpp:446:26: warning: 'coordinate_y' may be used uninitialized [-Wmaybe-uninitialized]
446 | sheet.drawEllipse(last_x,coordinate_y, sizefactor*MARK_WIDTHSIZE1/2.0,sizefactor*MARK_HEIGHTSIZE1);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
chromDrawCPP/canvas.cpp:396:15: note: 'coordinate_y' was declared here
396 | float coordinate_y;
| ^~~~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/chBlock.cpp -o chromDrawCPP/chBlock.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/chCentromere.cpp -o chromDrawCPP/chCentromere.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/chromosome.cpp -o chromDrawCPP/chromosome.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/chromosomeElement.cpp -o chromDrawCPP/chromosomeElement.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/chromosomeMark.cpp -o chromDrawCPP/chromosomeMark.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/chromosomeSign.cpp -o chromDrawCPP/chromosomeSign.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/color.cpp -o chromDrawCPP/color.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/colorPalette.cpp -o chromDrawCPP/colorPalette.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/getOpts.cpp -o chromDrawCPP/getOpts.o
chromDrawCPP/getOpts.cpp: In member function 'char getOpts::getOptions(int, char**, char*, char**)':
chromDrawCPP/getOpts.cpp:47:22: warning: unused variable 'x' [-Wunused-variable]
47 | char x = argv[argcurent][1];
| ^
chromDrawCPP/getOpts.cpp:48:22: warning: unused variable 'y' [-Wunused-variable]
48 | char y = argv[argcurent][2];
| ^
chromDrawCPP/getOpts.cpp:49:22: warning: unused variable 'o' [-Wunused-variable]
49 | char o = optv[optcurent];
| ^
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/ideogram.cpp -o chromDrawCPP/ideogram.o
chromDrawCPP/ideogram.cpp: In member function 'int ideogram::loadMatrix(std::string, std::string)':
chromDrawCPP/ideogram.cpp:80:9: warning: 'retVal' may be used uninitialized [-Wmaybe-uninitialized]
80 | if(retVal != 0)
| ^~
chromDrawCPP/ideogram.cpp:70:13: note: 'retVal' was declared here
70 | int retVal;
| ^~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/karyotype.cpp -o chromDrawCPP/karyotype.o
chromDrawCPP/karyotype.cpp: In member function 'int karyotype::loadMatrix(std::ifstream*)':
chromDrawCPP/karyotype.cpp:266:49: warning: deleting object of polymorphic class type 'chBlock' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
266 | delete block;
| ^~~~~~~~~~~~
chromDrawCPP/karyotype.cpp:274:41: warning: deleting object of polymorphic class type 'chBlock' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
274 | delete block;
| ^~~~~~~~~~~~
chromDrawCPP/karyotype.cpp:315:41: warning: deleting object of polymorphic class type 'chCentromere' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
315 | delete centromere;
| ^~~~~~~~~~~~~~~~~
chromDrawCPP/karyotype.cpp:421:49: warning: deleting object of polymorphic class type 'markSign' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
421 | delete mark;
| ^~~~~~~~~~~
chromDrawCPP/karyotype.cpp:429:41: warning: deleting object of polymorphic class type 'markSign' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
429 | delete mark;
| ^~~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/markSign.cpp -o chromDrawCPP/markSign.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c chromDrawCPP/parameters.cpp -o chromDrawCPP/parameters.o
chromDrawCPP/parameters.cpp:66:63: warning: extra tokens at end of #ifdef directive
66 | #ifdef _WIN32 || _WIN64
| ^~
chromDrawCPP/parameters.cpp:147:15: warning: extra tokens at end of #ifdef directive
147 | #ifdef _WIN32 || _WIN64
| ^~
chromDrawCPP/parameters.cpp:159:15: warning: extra tokens at end of #ifdef directive
159 | #ifdef _WIN32 || _WIN64
| ^~
chromDrawCPP/parameters.cpp: In member function 'int parameters::loadArguments(int, char**)':
chromDrawCPP/parameters.cpp:42:37: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
42 | char *paramsExpanded[10] = {"--help",
| ^~~~~~~~
chromDrawCPP/parameters.cpp:43:65: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
43 | "--outputpath",
| ^~~~~~~~~~~~~~
chromDrawCPP/parameters.cpp:44:65: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
44 | "--colorinputpath",
| ^~~~~~~~~~~~~~~~~~
chromDrawCPP/parameters.cpp:45:65: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
45 | "--datainputpath",
| ^~~~~~~~~~~~~~~~~
chromDrawCPP/parameters.cpp:46:65: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
46 | "--scale",
| ^~~~~~~~~
chromDrawCPP/parameters.cpp:47:65: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
47 | "--format"};
| ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -isystem ./libBoard/include -isystem ./chromDrawCPP -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c R_init_chromDraw.cpp -o R_init_chromDraw.o
g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o chromDraw.so chromDraw.o RcppExports.o ./libBoard/src/Board.o ./libBoard/src/Color.o ./libBoard/src/PSFonts.o ./libBoard/src/Path.o ./libBoard/src/Rect.o ./libBoard/src/ShapeList.o ./libBoard/src/Shapes.o ./libBoard/src/Tools.o ./libBoard/src/Transforms.o ./chromDrawCPP/canvas.o ./chromDrawCPP/chBlock.o ./chromDrawCPP/chCentromere.o ./chromDrawCPP/chromosome.o ./chromDrawCPP/chromosomeElement.o ./chromDrawCPP/chromosomeMark.o ./chromDrawCPP/chromosomeSign.o ./chromDrawCPP/color.o ./chromDrawCPP/colorPalette.o ./chromDrawCPP/getOpts.o ./chromDrawCPP/ideogram.o ./chromDrawCPP/karyotype.o ./chromDrawCPP/markSign.o ./chromDrawCPP/parameters.o ./R_init_chromDraw.o -L/home/biocbuild/R/R-4.4.1/lib -lR
installing to /home/biocbuild/R/R-4.4.1/site-library/00LOCK-chromDraw/00new/chromDraw/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (chromDraw)