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This page was generated on 2024-06-11 14:43 -0400 (Tue, 11 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4757
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4491
lconwaymacOS 12.7.1 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4522
kjohnson3macOS 13.6.5 Venturaarm644.4.0 (2024-04-24) -- "Puppy Cup" 4468
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Package 270/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CancerInSilico 2.24.0  (landing page)
Thomas D. Sherman
Snapshot Date: 2024-06-09 14:00 -0400 (Sun, 09 Jun 2024)
git_url: https://git.bioconductor.org/packages/CancerInSilico
git_branch: RELEASE_3_19
git_last_commit: 0549176
git_last_commit_date: 2024-04-30 10:54:04 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  ERROR    ERROR  skipped
palomino3Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.6.5 Ventura / arm64  ERROR    ERROR  skippedskipped

BUILD results for CancerInSilico on kjohnson3

To the developers/maintainers of the CancerInSilico package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CancerInSilico.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.

raw results


Summary

Package: CancerInSilico
Version: 2.24.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data CancerInSilico
StartedAt: 2024-06-09 19:02:34 -0400 (Sun, 09 Jun 2024)
EndedAt: 2024-06-09 19:03:01 -0400 (Sun, 09 Jun 2024)
EllapsedTime: 27.4 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data CancerInSilico
###
##############################################################################
##############################################################################


* checking for file ‘CancerInSilico/DESCRIPTION’ ... OK
* preparing ‘CancerInSilico’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘CancerInSilico’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RunModel.cpp -o RunModel.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c Tests/Core/test-CellType.cpp -o Tests/Core/test-CellType.o
Tests/Core/test-CellType.cpp:18:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type0.name() == "DEFAULT");
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:19:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type0.id() == 0);
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:20:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type0.size() == 1.0);
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:21:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type0.minCycle() == 48);
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:22:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type0.cycleLength() == 48);
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:28:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type1.name() == "DOUBLE_SIZE");
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:29:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type1.id() == 1);
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:30:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type1.size() == 2.0);
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:31:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type1.minCycle() == 48);
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
Tests/Core/test-CellType.cpp:32:9: error: unrecognized instruction mnemonic, did you mean: bit, cnt, hint, ins, not?
        REQUIRE(type1.cycleLength() == 48);
        ^
Tests/Core/../catch.h:11513:25: note: expanded from macro 'REQUIRE'
#define REQUIRE( expr ) INTERNAL_CATCH_TEST( "REQUIRE", Catch::ResultDisposition::Normal, expr  )
                        ^
Tests/Core/../catch.h:2162:9: note: expanded from macro 'INTERNAL_CATCH_TEST'
        INTERNAL_CATCH_REACT( __catchResult ) \
        ^
Tests/Core/../catch.h:2146:44: note: expanded from macro 'INTERNAL_CATCH_REACT'
    if( resultBuilder.shouldDebugBreak() ) CATCH_BREAK_INTO_DEBUGGER(); \
                                           ^
Tests/Core/../catch.h:2082:75: note: expanded from macro 'CATCH_BREAK_INTO_DEBUGGER'
    #define CATCH_BREAK_INTO_DEBUGGER() if( Catch::isDebuggerActive() ) { CATCH_TRAP(); }
                                                                          ^
Tests/Core/../catch.h:2060:38: note: expanded from macro 'CATCH_TRAP'
        #define CATCH_TRAP() __asm__("int $3\n" : : /* NOLINT */ )
                                     ^
<inline asm>:1:2: note: instantiated into assembly here
        int $3
        ^
10 errors generated.
make: *** [Tests/Core/test-CellType.o] Error 1
ERROR: compilation failed for package ‘CancerInSilico’
* removing ‘/private/tmp/RtmpkwxnvE/Rinstd14ef382d5b/CancerInSilico’
      -----------------------------------
ERROR: package installation failed