Python quit unexpectedly, Python 3.8.0 on macOS Catalina #13256
Description
I'm getting the strangest error message. When I build Python 3.8.0 on macOS Catalina, everything builds fine, and all the libraries appear to be linked correctly, but when I try to build something like numpy or scipy that depends on Python, I get one of those "would you like to report this bug to the developers" pop-ups that says "Python quit unexpectedly".
Steps to reproduce the issue
$ spack install --test=root py-numpy ^python@3:
$ spack install py-scipy ^python@3:Error Message
The strange thing is that it says Python 3.7.3 crashed (this is the system Python that comes with macOS that I'm using to run Spack), and the Parent Process is python3.8, which is the executable I'm using to build numpy/scipy. I'm not sure why Python 3.8 would be calling Python 3.7.
Process: Python [2113]
Path: /Applications/Xcode.app/Contents/Developer/Library/Frameworks/Python3.framework/Versions/3.7/Resources/Python.app/Contents/MacOS/Python
Identifier: Python
Version: 3.7.3 (3.7.3)
Build Info: python3-45000000000000~369
Code Type: X86-64 (Native)
Parent Process: python3.8 [1049]
Responsible: Terminal [613]
User ID: 501
Date/Time: 2019-10-17 18:21:21.268 -0500
OS Version: Mac OS X 10.15 (19A602)
Report Version: 12
Anonymous UUID: F81945A4-B77A-7472-CE03-3264A0A13B2D
Sleep/Wake UUID: 9680B008-DDB1-4652-B6F6-96C5AAFF7883
Time Awake Since Boot: 23000 seconds
Time Since Wake: 21000 seconds
System Integrity Protection: enabled
Crashed Thread: 0 Dispatch queue: com.apple.main-thread
Exception Type: EXC_CRASH (SIGABRT)
Exception Codes: 0x0000000000000000, 0x0000000000000000
Exception Note: EXC_CORPSE_NOTIFY
Termination Signal: Abort trap: 6
Termination Reason: Namespace SIGNAL, Code 0x6
Application Specific Information:
dyld2 mode
Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff66423ade __abort_with_payload + 10
1 libsystem_kernel.dylib 0x00007fff664254ef abort_with_payload_wrapper_internal + 80
2 libsystem_kernel.dylib 0x00007fff6642549f abort_with_reason + 19
3 org.python.python3 0x0000000100d23f05 fatal_error.cold.1 + 21
4 org.python.python3 0x0000000100ca6f78 fatal_error + 536
5 org.python.python3 0x0000000100ca643e _Py_FatalInitError + 30
6 org.python.python3 0x0000000100cd3158 pymain_main + 8936
7 org.python.python3 0x0000000100cd33bf _Py_UnixMain + 111
8 libdyld.dylib 0x00007fff662bb405 start + 1
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000002000209 rbx: 0x0000000000000002 rcx: 0x00007ffeef086748 rdx: 0x0000000000000000
rdi: 0x0000000000000002 rsi: 0x0000000000000006 rbp: 0x00007ffeef086790 rsp: 0x00007ffeef086748
r8: 0x00007fcc96800e00 r9: 0x0000000000000002 r10: 0x0000000000000000 r11: 0x0000000000000246
r12: 0x0000000000000000 r13: 0x0000000000000000 r14: 0x0000000000000006 r15: 0x0000000000000002
rip: 0x00007fff66423ade rfl: 0x0000000000000246 cr2: 0x0000000100fc7020
Logical CPU: 0
Error Code: 0x02000209
Trap Number: 133
Binary Images:
0x100b75000 - 0x100b75ff3 +org.python.python3 (3.7.3 - 3.7.3) <5794D7D4-29C2-30D5-9E7A-001132AB5F8F> /Applications/Xcode.app/Contents/Developer/Library/Frameworks/Python3.framework/Versions/3.7/Resources/Python.app/Contents/MacOS/Python
0x100b80000 - 0x100d7bfff +org.python.python3 (3.7.3 - 3.7.3) <7A606CC1-DA05-3C34-BC5C-256C22343EDC> /Applications/Xcode.app/Contents/Developer/Library/Frameworks/Python3.framework/Versions/3.7/Python3
0x107af3000 - 0x107b8193f dyld (732.8) <42C11B81-6928-369F-B03E-D57355572700> /usr/lib/dyld
0x7fff2eed1000 - 0x7fff2f350ff7 com.apple.CoreFoundation (6.9 - 1671.15) <B888CEC3-88BC-3D1F-BDD7-A664AB66F0BA> /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation
0x7fff62bd4000 - 0x7fff62bd6fff libDiagnosticMessagesClient.dylib (112) <418D550B-C748-3D55-A6D5-0398E032F9F3> /usr/lib/libDiagnosticMessagesClient.dylib
0x7fff6309b000 - 0x7fff6309cff3 libSystem.B.dylib (1281) <66742D2E-591A-32B2-8E92-4A54BEE843F6> /usr/lib/libSystem.B.dylib
0x7fff63410000 - 0x7fff63463fff libc++.1.dylib (800.6) <328FB687-2363-38B1-AC11-11736925C775> /usr/lib/libc++.1.dylib
0x7fff63464000 - 0x7fff63478fff libc++abi.dylib (800.7) <02753D3D-91C6-3670-8B5D-EBE040B516FC> /usr/lib/libc++abi.dylib
0x7fff63ecf000 - 0x7fff63ed1ff7 libfakelink.dylib (149) <FC5712CB-2188-3DAD-8DD4-CC3ECCA3F9A8> /usr/lib/libfakelink.dylib
0x7fff63fdc000 - 0x7fff64234ff7 libicucore.A.dylib (64232.0.1) <88E47471-605C-3C86-871B-5D2F4628A936> /usr/lib/libicucore.A.dylib
0x7fff64f56000 - 0x7fff64f87fd6 libobjc.A.dylib (779.1) <D681D734-2739-3D18-9DCB-9ECDA9D492BC> /usr/lib/libobjc.A.dylib
0x7fff6561f000 - 0x7fff65631fff libz.1.dylib (76) <3FC3FC3E-ABF3-3167-9078-B54C952608B4> /usr/lib/libz.1.dylib
0x7fff66096000 - 0x7fff6609bff7 libcache.dylib (83) <8EC69760-6DAA-3068-9372-F1D554C548E5> /usr/lib/system/libcache.dylib
0x7fff6609c000 - 0x7fff660a7ff7 libcommonCrypto.dylib (60165) <698BE754-137D-361D-B826-57B8DD969E4A> /usr/lib/system/libcommonCrypto.dylib
0x7fff660a8000 - 0x7fff660affff libcompiler_rt.dylib (101.2) <0BE7F119-C9C2-3612-A3F4-2336D4444476> /usr/lib/system/libcompiler_rt.dylib
0x7fff660b0000 - 0x7fff660b9ff7 libcopyfile.dylib (166) <B5E73B1C-0BCF-33FE-80A1-D9E3BA3033D4> /usr/lib/system/libcopyfile.dylib
0x7fff660ba000 - 0x7fff66151fc3 libcorecrypto.dylib (866.0.10) <58344B13-CD10-3697-A516-6F5B06DD1EB7> /usr/lib/system/libcorecrypto.dylib
0x7fff66268000 - 0x7fff662a9ff0 libdispatch.dylib (1173.0.3) <F4260D89-F67D-30CB-AF61-7ED25CB687DB> /usr/lib/system/libdispatch.dylib
0x7fff662aa000 - 0x7fff662dffff libdyld.dylib (732.8) <98960E27-A08B-36DA-A5CB-8538B2D6757E> /usr/lib/system/libdyld.dylib
0x7fff662e0000 - 0x7fff662e0ffb libkeymgr.dylib (30) <682B41BC-BDC2-38D5-8820-87099606FA12> /usr/lib/system/libkeymgr.dylib
0x7fff662ee000 - 0x7fff662eeff7 liblaunch.dylib (1738.11.1) <7FE11F0D-65BC-3726-B1DD-E84F329193E0> /usr/lib/system/liblaunch.dylib
0x7fff662ef000 - 0x7fff662f4ff7 libmacho.dylib (949.0.1) <163DFE06-2FAD-3CBC-80EF-C38EED6AEA52> /usr/lib/system/libmacho.dylib
0x7fff662f5000 - 0x7fff662f7ff3 libquarantine.dylib (110.0.4) <C8F39330-8CB5-30B0-8564-96453DCEFAD7> /usr/lib/system/libquarantine.dylib
0x7fff662f8000 - 0x7fff662f9ff7 libremovefile.dylib (48) <FB280185-B5ED-3F08-B08A-A378865C1398> /usr/lib/system/libremovefile.dylib
0x7fff662fa000 - 0x7fff66311fff libsystem_asl.dylib (377.0.1) <30CE9DAF-B1FA-3510-832B-F1CE19933ED7> /usr/lib/system/libsystem_asl.dylib
0x7fff66312000 - 0x7fff66312fff libsystem_blocks.dylib (74) <E0B8C825-E62B-357E-A2A0-13776F0A0F8C> /usr/lib/system/libsystem_blocks.dylib
0x7fff66313000 - 0x7fff6639aff7 libsystem_c.dylib (1353.11.2) <2A5BFAFE-8214-3B35-AD46-C07A1A8B8941> /usr/lib/system/libsystem_c.dylib
0x7fff6639b000 - 0x7fff6639efff libsystem_configuration.dylib (1061.0.2) <56174463-22ED-337F-B0D4-94995DCDB9B7> /usr/lib/system/libsystem_configuration.dylib
0x7fff6639f000 - 0x7fff663a2ff7 libsystem_coreservices.dylib (114) <01695913-028E-3AE1-8D4E-2B2769109811> /usr/lib/system/libsystem_coreservices.dylib
0x7fff663a3000 - 0x7fff663aafff libsystem_darwin.dylib (1353.11.2) <4CE52C63-87AA-3C6D-899F-8C983E5FC061> /usr/lib/system/libsystem_darwin.dylib
0x7fff663ab000 - 0x7fff663b2ffb libsystem_dnssd.dylib (1096.0.2) <DC7381E8-F09F-3441-8267-9B8F50A0EBA9> /usr/lib/system/libsystem_dnssd.dylib
0x7fff663b3000 - 0x7fff663b4ffb libsystem_featureflags.dylib (17) <DBCA4AA2-CA05-38D5-AB4B-BE0F3E09BB8B> /usr/lib/system/libsystem_featureflags.dylib
0x7fff663b5000 - 0x7fff66402ff7 libsystem_info.dylib (538) <9F9D6368-A11E-32F1-9BB5-C153F42EFED8> /usr/lib/system/libsystem_info.dylib
0x7fff66403000 - 0x7fff6642ffff libsystem_kernel.dylib (6153.11.26) <4CE9D54A-A975-348E-B878-EE74EDFC956B> /usr/lib/system/libsystem_kernel.dylib
0x7fff66430000 - 0x7fff6647bfe7 libsystem_m.dylib (3178) <FE5E5748-6ACA-3AD2-AF9D-557EB9A3BD7E> /usr/lib/system/libsystem_m.dylib
0x7fff6647c000 - 0x7fff664a3fff libsystem_malloc.dylib (283) <02925539-3CBA-39EB-BA6B-9A936CFA0BF8> /usr/lib/system/libsystem_malloc.dylib
0x7fff664a4000 - 0x7fff664b1ff3 libsystem_networkextension.dylib (1095.11.9) <8B5EE189-E3D1-31FD-878F-50286B6E7047> /usr/lib/system/libsystem_networkextension.dylib
0x7fff664b2000 - 0x7fff664bbfff libsystem_notify.dylib (241) <89381127-2A07-3F07-B865-358FACCF9102> /usr/lib/system/libsystem_notify.dylib
0x7fff664bc000 - 0x7fff664c5fe7 libsystem_platform.dylib (220) <90E508E4-46D8-33FF-8552-DDAA079977A0> /usr/lib/system/libsystem_platform.dylib
0x7fff664c6000 - 0x7fff664d0fff libsystem_pthread.dylib (416.11.1) <2EA6F95F-F264-30B6-8AF2-24197B5AED84> /usr/lib/system/libsystem_pthread.dylib
0x7fff664d1000 - 0x7fff664d5ffb libsystem_sandbox.dylib (1217.11.16) <51129CBB-BC46-37F1-A1B5-ECFA9530704D> /usr/lib/system/libsystem_sandbox.dylib
0x7fff664d6000 - 0x7fff664d8fff libsystem_secinit.dylib (62.0.4) <A48D9AF3-75F2-3331-A0C8-0A23771F4AC7> /usr/lib/system/libsystem_secinit.dylib
0x7fff664d9000 - 0x7fff664e0ffb libsystem_symptoms.dylib (1238.0.2) <08E8CF75-5F77-3475-A48E-A01CBDF09173> /usr/lib/system/libsystem_symptoms.dylib
0x7fff664e1000 - 0x7fff664f7ff2 libsystem_trace.dylib (1147.0.3) <5836645E-9862-326D-AB3B-A19E76BE29B9> /usr/lib/system/libsystem_trace.dylib
0x7fff664f9000 - 0x7fff664feffb libunwind.dylib (35.4) <F5AE1D43-7C5F-3BA2-94D3-E769F82C0F61> /usr/lib/system/libunwind.dylib
0x7fff664ff000 - 0x7fff66533ff6 libxpc.dylib (1738.11.1) <2E9076CD-6C0E-38B6-8403-B2DDCE125FBF> /usr/lib/system/libxpc.dylib
External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 0
thread_create: 0
thread_set_state: 0
Calls made by this process:
task_for_pid: 0
thread_create: 0
thread_set_state: 0
Calls made by all processes on this machine:
task_for_pid: 15256
thread_create: 0
thread_set_state: 0
VM Region Summary:
ReadOnly portion of Libraries: Total=362.7M resident=0K(0%) swapped_out_or_unallocated=362.7M(100%)
Writable regions: Total=53.6M written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=53.6M(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Kernel Alloc Once 8K 1
MALLOC 36.3M 16
MALLOC guard page 16K 3
STACK GUARD 4K 1
Stack 16.0M 2
VM_ALLOCATE 1024K 4
__DATA 2577K 48
__DATA_CONST 20K 1
__LINKEDIT 349.1M 4
__OBJC_RO 31.8M 1
__OBJC_RW 1764K 2
__TEXT 13.6M 46
__UNICODE 564K 1
shared memory 8K 2
=========== ======= =======
TOTAL 452.6M 132
Model: MacBookPro10,2, BootROM 281.0.0.0.0, 2 processors, Dual-Core Intel Core i5, 2.6 GHz, 8 GB, SMC 2.6f59
Graphics: kHW_IntelHD4000Item, Intel HD Graphics 4000, spdisplays_builtin
Memory Module: BANK 0/DIMM0, 4 GB, DDR3, 1600 MHz, 0x802C, 0x384B54463531323634485A2D314736453120
Memory Module: BANK 1/DIMM0, 4 GB, DDR3, 1600 MHz, 0x802C, 0x384B54463531323634485A2D314736453120
AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x10F), Broadcom BCM43xx 1.0 (7.21.190.33 AirPortDriverBrcm4360-1408)
Bluetooth: Version 7.0.0f8, 3 services, 18 devices, 1 incoming serial ports
Network Service: Wi-Fi 2, AirPort, en0
Serial ATA Device: APPLE SSD SD512E, 500.28 GB
USB Device: USB 2.0 Bus
USB Device: Hub
USB Device: Hub
USB Device: Apple Internal Keyboard / Trackpad
USB Device: BRCM20702 Hub
USB Device: Bluetooth USB Host Controller
USB Device: USB 2.0 Bus
USB Device: Hub
USB Device: FaceTime HD Camera (Built-in)
USB Device: USB 3.0 Bus
USB Device: Microsoft® 2.4GHz Transceiver v9.0
Thunderbolt Bus: MacBook Pro, Apple Inc., 23.4