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#1 2018-04-30 10:20:14

orrin5250
Member
Registered: 2016-10-12
Posts: 39

[SOLVED] Oops - upgraded system without addressing news item re: pam

I assumed stupidly this did not apply to me.  I should have done more research.  If there is already a thread to address this I couldn't find it.

Since my latest system update cron is not happy and there seem to be problems with PAM.  Here is what I am getting in the journal when cron tries to run scheduled scripts:

Apr 30 06:00:01 ryzen crond[502]: (root) CAN'T OPEN (/etc/crontab): No such file or directory
Apr 30 06:00:01 ryzen crond[502]: (orrin) RELOAD (/var/spool/cron/orrin)
Apr 30 06:00:01 ryzen crond[4392]: PAM unable to dlopen(/usr/lib/security/pam_unix.so): /usr/lib/libpthread.so.0: symbol __sigtimedwait, version GLIBC_PRIVATE not defined in file libc.so.6 with link time reference
Apr 30 06:00:01 ryzen crond[4392]: PAM adding faulty module: /usr/lib/security/pam_unix.so
Apr 30 06:00:01 ryzen crond[4391]: PAM unable to dlopen(/usr/lib/security/pam_unix.so): /usr/lib/libpthread.so.0: symbol __sigtimedwait, version GLIBC_PRIVATE not defined in file libc.so.6 with link time reference
Apr 30 06:00:01 ryzen crond[4391]: PAM adding faulty module: /usr/lib/security/pam_unix.so
Apr 30 06:00:01 ryzen kernel: crond[4392]: segfault at 968 ip 00007f49228969cb sp 00007ffeb4374890 error 4 in libpthread-2.27.so[7f4922891000+19000]
Apr 30 06:00:01 ryzen kernel: crond[4391]: segfault at 968 ip 00007f49228969cb sp 00007ffeb4374890 error 4 in libpthread-2.27.so[7f4922891000+19000]
Apr 30 06:00:01 ryzen systemd[1]: Started Process Core Dump (PID 4393/UID 0).
Apr 30 06:00:01 ryzen systemd[1]: Started Process Core Dump (PID 4394/UID 0).
Apr 30 06:00:02 ryzen systemd-coredump[4395]: Process 4392 (crond) of user 0 dumped core.
                                              
                                              Stack trace of thread 4392:
                                              #0  0x00007f49228969cb __pthread_initialize_minimal (libpthread.so.0)
                                              #1  0x00007f4922896681 _init (libpthread.so.0)
Apr 30 06:00:02 ryzen systemd-coredump[4396]: Process 4391 (crond) of user 0 dumped core.
                                              
                                              Stack trace of thread 4391:
                                              #0  0x00007f49228969cb __pthread_initialize_minimal (libpthread.so.0)
                                              #1  0x00007f4922896681 _init (libpthread.so.0)
Apr 30 06:01:01 ryzen crond[4598]: PAM unable to dlopen(/usr/lib/security/pam_unix.so): /usr/lib/libpthread.so.0: symbol __sigtimedwait, version GLIBC_PRIVATE not defined in file libc.so.6 with link time reference
Apr 30 06:01:01 ryzen kernel: crond[4597]: segfault at 968 ip 00007f49236449cb sp 00007ffeb4374e50 error 4 in libpthread-2.27.so[7f492363f000+19000]
Apr 30 06:01:01 ryzen kernel: crond[4598]: segfault at 968 ip 00007f49228969cb sp 00007ffeb4374890 error 4 in libpthread-2.27.so[7f4922891000+19000]
Apr 30 06:01:01 ryzen crond[4598]: PAM adding faulty module: /usr/lib/security/pam_unix.so
Apr 30 06:01:01 ryzen systemd[1]: Started Process Core Dump (PID 4599/UID 0).
Apr 30 06:01:01 ryzen systemd[1]: Started Process Core Dump (PID 4600/UID 0).
Apr 30 06:01:01 ryzen systemd-coredump[4601]: Process 4597 (crond) of user 0 dumped core.
                                              
                                              Stack trace of thread 4597:
                                              #0  0x00007f49236449cb __pthread_initialize_minimal (libpthread.so.0)
                                              #1  0x00007f4923644681 _init (libpthread.so.0)
Apr 30 06:01:01 ryzen systemd-coredump[4602]: Process 4598 (crond) of user 0 dumped core.
                                              
                                              Stack trace of thread 4598:
                                              #0  0x00007f49228969cb __pthread_initialize_minimal (libpthread.so.0)
                                              #1  0x00007f4922896681 _init (libpthread.so.0)
Apr 30 06:02:01 ryzen crond[4632]: PAM unable to dlopen(/usr/lib/security/pam_unix.so): /usr/lib/libpthread.so.0: symbol __sigtimedwait, version GLIBC_PRIVATE not defined in file libc.so.6 with link time reference
Apr 30 06:02:01 ryzen kernel: crond[4632]: segfault at 968 ip 00007f49228969cb sp 00007ffeb4374890 error 4 in libpthread-2.27.so[7f4922891000+19000]
Apr 30 06:02:01 ryzen systemd[1]: Started Process Core Dump (PID 4633/UID 0).
Apr 30 06:02:01 ryzen crond[4632]: PAM adding faulty module: /usr/lib/security/pam_unix.so
Apr 30 06:02:01 ryzen systemd-coredump[4634]: Process 4632 (crond) of user 0 dumped core.
                                              
                                              Stack trace of thread 4632:
                                              #0  0x00007f49228969cb __pthread_initialize_minimal (libpthread.so.0)
                                              #1  0x00007f4922896681 _init (libpthread.so.0)

Not sure if relevant but here is log of last pacman update:

[2018-04-28 05:49] [PACMAN] Running 'pacman -Syu'
[2018-04-28 05:49] [PACMAN] synchronizing package lists
[2018-04-28 05:49] [PACMAN] starting full system upgrade
[2018-04-28 05:53] [ALPM] transaction started
[2018-04-28 05:53] [ALPM] upgraded linux-api-headers (4.14.8-1 -> 4.16.1-1)
[2018-04-28 05:53] [ALPM] warning: /etc/locale.gen installed as /etc/locale.gen.pacnew
[2018-04-28 05:53] [ALPM] upgraded glibc (2.26-11 -> 2.27-2)
[2018-04-28 05:53] [ALPM-SCRIPTLET] Generating locales...
[2018-04-28 05:53] [ALPM-SCRIPTLET]   en_US.UTF-8... done
[2018-04-28 05:53] [ALPM-SCRIPTLET] Generation complete.
[2018-04-28 05:53] [ALPM] upgraded gcc-libs (7.3.1+20180312-2 -> 7.3.1+20180406-1)
[2018-04-28 05:53] [ALPM] upgraded perl (5.26.1-2 -> 5.26.2-1)
[2018-04-28 05:53] [ALPM] upgraded pam (1.3.0-1 -> 1.3.0-2)
[2018-04-28 05:53] [ALPM] upgraded libepoxy (1.5.0-1 -> 1.5.1-1)
[2018-04-28 05:53] [ALPM] upgraded xkeyboard-config (2.23.1-2 -> 2.23.1-3)
[2018-04-28 05:53] [ALPM] upgraded qt5-base (5.10.1-7 -> 5.10.1-8)
[2018-04-28 05:53] [ALPM] upgraded pinentry (1.1.0-1 -> 1.1.0-2)
[2018-04-28 05:53] [ALPM] upgraded gpgme (1.10.0-2 -> 1.11.1-1)
[2018-04-28 05:53] [ALPM] upgraded phonon-qt5 (4.10.0-1 -> 4.10.1-1)
[2018-04-28 05:53] [ALPM] upgraded libbytesize (1.1-1 -> 1.2-1)
[2018-04-28 05:53] [ALPM] installed libnsl (1.2.0-1)
[2018-04-28 05:53] [ALPM] upgraded python (3.6.5-1 -> 3.6.5-2)
[2018-04-28 05:53] [ALPM] upgraded thin-provisioning-tools (0.7.5-1 -> 0.7.6-1)
[2018-04-28 05:53] [ALPM] upgraded python2 (2.7.14-2 -> 2.7.14-3)
[2018-04-28 05:53] [ALPM] upgraded akonadi (17.12.3-1 -> 18.04.0-1)
[2018-04-28 05:53] [ALPM] upgraded binutils (2.29.1-3 -> 2.30-3)
[2018-04-28 05:53] [ALPM] upgraded brotli (1.0.3-1 -> 1.0.4-1)
[2018-04-28 05:53] [ALPM] upgraded colord (1.4.2-3 -> 1.4.3-1)
[2018-04-28 05:53] [ALPM] upgraded chromium (66.0.3359.117-1 -> 66.0.3359.139-1)
[2018-04-28 05:53] [ALPM] upgraded gcc (7.3.1+20180312-2 -> 7.3.1+20180406-1)
[2018-04-28 05:53] [ALPM] upgraded jre8-openjdk-headless (8.u162-2 -> 8.u172-2)
[2018-04-28 05:53] [ALPM] upgraded jre8-openjdk (8.u162-2 -> 8.u172-2)
[2018-04-28 05:53] [ALPM] upgraded jdk8-openjdk (8.u162-2 -> 8.u172-2)
[2018-04-28 05:53] [ALPM] upgraded kcontacts (17.12.3-1 -> 18.04.0-1)
[2018-04-28 05:53] [ALPM] upgraded kpimtextedit (17.12.3-1 -> 18.04.0-1)
[2018-04-28 05:53] [ALPM] upgraded kidentitymanagement (17.12.3-1 -> 18.04.0-1)
[2018-04-28 05:53] [ALPM] upgraded qt5-declarative (5.10.1-3 -> 5.10.1-4)
[2018-04-28 05:53] [ALPM] upgraded kqtquickcharts (17.12.3-1 -> 18.04.0-1)
[2018-04-28 05:53] [ALPM] upgraded ldb (1.3.1-1 -> 1.3.2-1)
[2018-04-28 05:53] [ALPM] upgraded libetonyek (0.1.7-1 -> 0.1.8-1)
[2018-04-28 05:53] [ALPM] upgraded libgsf (1.14.42-1 -> 1.14.43-1)
[2018-04-28 05:53] [ALPM] upgraded libuv (1.20.0-1 -> 1.20.2-1)
[2018-04-28 05:53] [ALPM] upgraded libwbclient (4.7.6-1 -> 4.8.0-2)
[2018-04-28 05:53] [ALPM] upgraded linux (4.16.3-1 -> 4.16.4-1)
[2018-04-28 05:53] [ALPM] upgraded linux-headers (4.16.3-1 -> 4.16.4-1)
[2018-04-28 05:54] [ALPM] upgraded mono (5.10.1.16-1 -> 5.10.1.47-1)
[2018-04-28 05:54] [ALPM-SCRIPTLET] Mono Certificate Store Sync - version 5.10.1.0
[2018-04-28 05:54] [ALPM-SCRIPTLET] Populate Mono certificate store from a concatenated list of certificates.
[2018-04-28 05:54] [ALPM-SCRIPTLET] Copyright 2002, 2003 Motus Technologies. Copyright 2004-2008 Novell. BSD licensed.
[2018-04-28 05:54] [ALPM-SCRIPTLET] 
[2018-04-28 05:54] [ALPM-SCRIPTLET] Importing into legacy system store:
[2018-04-28 05:54] [ALPM-SCRIPTLET] I already trust 165, your new list has 135
[2018-04-28 05:54] [ALPM-SCRIPTLET] 29 previously trusted certificates were removed.
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=ch, O=Swisscom, OU=Digital Certificate Services, CN=Swisscom Root CA 1
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=US, O=Digital Signature Trust, OU=DST ACES, CN=DST ACES CA X6
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=FR, O=Certinomis, OU=0002 433998903, CN=Certinomis - Autorité Racine
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: CN=TÜRKTRUST Elektronik Sertifika Hizmet Sağlayıcısı, C=TR, L=Ankara, O=TÜRKTRUST Bilgi İletişim ve Bilişim Güvenliği Hizmetleri A.Ş. (c) Aralık 2007
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=JP, O="SECOM Trust Systems CO.,LTD.", OU=Security Communication EV RootCA1
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=SE, O=AddTrust AB, OU=AddTrust TTP Network, CN=AddTrust Qualified CA Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=GB, S=Greater Manchester, L=Salford, O=Comodo CA Limited, CN=Secure Certificate Services
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: E=contacto@procert.net.ve, L=Chacao, S=Miranda, OU=Proveedor de Certificados PROCERT, O=Sistema Nacional de Certificacion Electronica, C=VE, CN=PSCProcert
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=EU, O=AC Camerfirma SA CIF A82743287, OU=http://www.chambersign.org, CN=Global Chambersign Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=ch, O=Swisscom, OU=Digital Certificate Services, CN=Swisscom Root EV CA 2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=IL, O=StartCom Ltd., CN=StartCom Certification Authority G2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=ch, O=Swisscom, OU=Digital Certificate Services, CN=Swisscom Root CA 2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=IL, O=StartCom Ltd., OU=Secure Digital Certificate Signing, CN=StartCom Certification Authority
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=IL, O=StartCom Ltd., OU=Secure Digital Certificate Signing, CN=StartCom Certification Authority
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=CNNIC, CN=CNNIC ROOT
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=US, O=GeoTrust Inc., CN=GeoTrust Global CA 2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=China Internet Network Information Center, CN=China Internet Network Information Center EV Certificates Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=SE, O=AddTrust AB, OU=AddTrust TTP Network, CN=AddTrust Public CA Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=SK, L=Bratislava, O=Disig a.s., CN=CA Disig Root R1
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=SE, O=AddTrust AB, OU=AddTrust TTP Network, CN=AddTrust Class 1 CA Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=US, S=UT, L=Salt Lake City, O=The USERTRUST Network, OU=http://www.usertrust.com, CN=UTN-USERFirst-Hardware
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: CN=ACEDICOM Root, OU=PKI, O=EDICOM, C=ES
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=TR, L=Gebze - Kocaeli, O=Türkiye Bilimsel ve Teknolojik Araştırma Kurumu - TÜBİTAK, OU=Ulusal Elektronik ve Kriptoloji Araştırma Enstitüsü - UEKAE, OU=Kamu Sertifikasyon Merkezi, CN=TÜBİTAK UEKAE Kök Sertifika Hizmet Sağlayıcısı - Sürüm 3
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=GB, S=Greater Manchester, L=Salford, O=Comodo CA Limited, CN=Trusted Certificate Services
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=WoSign CA Limited, CN=CA 沃通根证书
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=WoSign CA Limited, CN=Certification Authority of WoSign
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=EU, O=AC Camerfirma SA CIF A82743287, OU=http://www.chambersign.org, CN=Chambers of Commerce Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=WoSign CA Limited, CN=Certification Authority of WoSign G2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=PL, O=Unizeto Sp. z o.o., CN=Certum CA
[2018-04-28 05:54] [ALPM-SCRIPTLET] Import process completed.
[2018-04-28 05:54] [ALPM-SCRIPTLET] 
[2018-04-28 05:54] [ALPM-SCRIPTLET] Importing into BTLS system store:
[2018-04-28 05:54] [ALPM-SCRIPTLET] I already trust 164, your new list has 135
[2018-04-28 05:54] [ALPM-SCRIPTLET] 28 previously trusted certificates were removed.
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=ch, O=Swisscom, OU=Digital Certificate Services, CN=Swisscom Root EV CA 2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=China Internet Network Information Center, CN=China Internet Network Information Center EV Certificates Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: CN=ACEDICOM Root, OU=PKI, O=EDICOM, C=ES
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=ch, O=Swisscom, OU=Digital Certificate Services, CN=Swisscom Root CA 2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=PL, O=Unizeto Sp. z o.o., CN=Certum CA
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=GB, S=Greater Manchester, L=Salford, O=Comodo CA Limited, CN=Trusted Certificate Services
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: CN=TÜRKTRUST Elektronik Sertifika Hizmet Sağlayıcısı, C=TR, L=Ankara, O=TÜRKTRUST Bilgi İletişim ve Bilişim Güvenliği Hizmetleri A.Ş. (c) Aralık 2007
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=WoSign CA Limited, CN=CA 沃通根证书
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=TR, L=Gebze - Kocaeli, O=Türkiye Bilimsel ve Teknolojik Araştırma Kurumu - TÜBİTAK, OU=Ulusal Elektronik ve Kriptoloji Araştırma Enstitüsü - UEKAE, OU=Kamu Sertifikasyon Merkezi, CN=TÜBİTAK UEKAE Kök Sertifika Hizmet Sağlayıcısı - Sürüm 3
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=ch, O=Swisscom, OU=Digital Certificate Services, CN=Swisscom Root CA 1
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=US, O=Digital Signature Trust, OU=DST ACES, CN=DST ACES CA X6
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=WoSign CA Limited, CN=Certification Authority of WoSign
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=SE, O=AddTrust AB, OU=AddTrust TTP Network, CN=AddTrust Class 1 CA Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=IL, O=StartCom Ltd., CN=StartCom Certification Authority G2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=SE, O=AddTrust AB, OU=AddTrust TTP Network, CN=AddTrust Public CA Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=SK, L=Bratislava, O=Disig a.s., CN=CA Disig Root R1
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=JP, O="SECOM Trust Systems CO.,LTD.", OU=Security Communication EV RootCA1
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=IL, O=StartCom Ltd., OU=Secure Digital Certificate Signing, CN=StartCom Certification Authority
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=US, S=UT, L=Salt Lake City, O=The USERTRUST Network, OU=http://www.usertrust.com, CN=UTN-USERFirst-Hardware
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=CNNIC, CN=CNNIC ROOT
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: E=contacto@procert.net.ve, L=Chacao, S=Miranda, OU=Proveedor de Certificados PROCERT, O=Sistema Nacional de Certificacion Electronica, C=VE, CN=PSCProcert
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=GB, S=Greater Manchester, L=Salford, O=Comodo CA Limited, CN=Secure Certificate Services
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=EU, O=AC Camerfirma SA CIF A82743287, OU=http://www.chambersign.org, CN=Global Chambersign Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=US, O=GeoTrust Inc., CN=GeoTrust Global CA 2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=FR, O=Certinomis, OU=0002 433998903, CN=Certinomis - Autorité Racine
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=SE, O=AddTrust AB, OU=AddTrust TTP Network, CN=AddTrust Qualified CA Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=CN, O=WoSign CA Limited, CN=Certification Authority of WoSign G2
[2018-04-28 05:54] [ALPM-SCRIPTLET] Certificate removed: C=EU, O=AC Camerfirma SA CIF A82743287, OU=http://www.chambersign.org, CN=Chambers of Commerce Root
[2018-04-28 05:54] [ALPM-SCRIPTLET] Import process completed.
[2018-04-28 05:54] [ALPM] upgraded mono-addins (1.3.3-1 -> 1.3.3-2)
[2018-04-28 05:54] [ALPM] upgraded net-snmp (5.7.3-7 -> 5.7.3-8)
[2018-04-28 05:54] [ALPM] upgraded nmap (7.70-1 -> 7.70-2)
[2018-04-28 05:54] [ALPM] upgraded nodejs (9.11.1-1 -> 10.0.0-1)
[2018-04-28 05:54] [ALPM] upgraded npm (5.8.0-2 -> 6.0.0-1)
[2018-04-28 05:54] [ALPM] upgraded nvidia (390.48-9 -> 390.48-10)
[2018-04-28 05:54] [ALPM] upgraded perl-uri (1.73-1 -> 1.74-1)
[2018-04-28 05:54] [ALPM] upgraded phonon-qt4 (4.10.0-1 -> 4.10.1-1)
[2018-04-28 05:54] [ALPM] upgraded python-beaker (1.8.1-2 -> 1.9.1-1)
[2018-04-28 05:54] [ALPM] upgraded python2-sqlalchemy (1.2.6-1 -> 1.2.7-1)
[2018-04-28 05:54] [ALPM] upgraded python2-zope-interface (4.4.3-1 -> 4.5.0-1)
[2018-04-28 05:54] [ALPM] upgraded qgpgme (1.10.0-2 -> 1.11.1-1)
[2018-04-28 05:54] [ALPM] upgraded smbclient (4.7.6-1 -> 4.8.0-2)
[2018-04-28 05:54] [ALPM] upgraded srt (1.3.0-1 -> 1.3.0-2)
[2018-04-28 05:54] [ALPM] upgraded virtualbox-host-modules-arch (5.2.10-2 -> 5.2.10-3)
[2018-04-28 05:54] [ALPM] transaction completed
[2018-04-28 05:54] [ALPM] running '60-linux.hook'...
[2018-04-28 05:54] [ALPM] running '90-linux.hook'...
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Building image from preset: /etc/mkinitcpio.d/linux.preset: 'default'
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> -k /boot/vmlinuz-linux -c /etc/mkinitcpio.conf -g /boot/initramfs-linux.img
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Starting build: 4.16.4-1-ARCH
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [base]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [udev]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [autodetect]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [modconf]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [block]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [filesystems]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [keyboard]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [fsck]
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Generating module dependencies
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Creating gzip-compressed initcpio image: /boot/initramfs-linux.img
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Image generation successful
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Building image from preset: /etc/mkinitcpio.d/linux.preset: 'fallback'
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> -k /boot/vmlinuz-linux -c /etc/mkinitcpio.conf -g /boot/initramfs-linux-fallback.img -S autodetect
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Starting build: 4.16.4-1-ARCH
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [base]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [udev]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [modconf]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [block]
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> WARNING: Possibly missing firmware for module: aic94xx
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> WARNING: Possibly missing firmware for module: wd719x
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [filesystems]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [keyboard]
[2018-04-28 05:54] [ALPM-SCRIPTLET]   -> Running build hook: [fsck]
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Generating module dependencies
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Creating gzip-compressed initcpio image: /boot/initramfs-linux-fallback.img
[2018-04-28 05:54] [ALPM-SCRIPTLET] ==> Image generation successful
[2018-04-28 05:54] [ALPM] running 'detect-old-perl-modules.hook'...
[2018-04-28 05:54] [ALPM] running 'glib-compile-schemas.hook'...
[2018-04-28 05:54] [ALPM] running 'gtk-update-icon-cache.hook'...
[2018-04-28 05:54] [ALPM] running 'systemd-binfmt.hook'...
[2018-04-28 05:54] [ALPM] running 'systemd-daemon-reload.hook'...
[2018-04-28 05:54] [ALPM] running 'systemd-sysusers.hook'...
[2018-04-28 05:54] [ALPM] running 'systemd-tmpfiles.hook'...
[2018-04-28 05:54] [ALPM] running 'systemd-udev-reload.hook'...
[2018-04-28 05:54] [ALPM] running 'systemd-update.hook'...
[2018-04-28 05:54] [ALPM] running 'texinfo-install.hook'...
[2018-04-28 05:54] [ALPM] running 'update-desktop-database.hook'...
[2018-04-28 05:54] [ALPM] running 'update-mime-database.hook'...
[2018-04-28 05:54] [ALPM-SCRIPTLET] Unknown media type in type 'all/all'
[2018-04-28 05:54] [ALPM-SCRIPTLET] Unknown media type in type 'all/allfiles'

I also just reinstalled pam but no luck fixing the problem:

[2018-04-30 05:58] [PACMAN] Running 'pacman -S pam'
[2018-04-30 05:58] [ALPM] transaction started
[2018-04-30 05:58] [ALPM] reinstalled pam (1.3.0-2)
[2018-04-30 05:58] [ALPM] transaction completed
[2018-04-30 05:58] [ALPM] running 'systemd-update.hook'...

Again not certain if this helps but:

$ grep -r pam_unix2 /etc/pam.d                           
/etc/pam.d/xscreensaver:# auth     required       pam_unix2.so	nullok

$ grep -r pam_unix /etc/pam.d 
/etc/pam.d/xscreensaver:# auth     required       pam_unix2.so	nullok
/etc/pam.d/cups:auth		required	pam_unix.so
/etc/pam.d/cups:account		required	pam_unix.so
/etc/pam.d/cups:session		required	pam_unix.so
/etc/pam.d/chfn:auth		required	pam_unix.so
/etc/pam.d/chfn:account		required	pam_unix.so
/etc/pam.d/chfn:session		required	pam_unix.so
/etc/pam.d/groupmod:auth		required	pam_unix.so
/etc/pam.d/groupmod:account		required	pam_unix.so
/etc/pam.d/groupmod:session		required	pam_unix.so
/etc/pam.d/shadow:auth		required	pam_unix.so
/etc/pam.d/shadow:account		required	pam_unix.so
/etc/pam.d/shadow:session		required	pam_unix.so
/etc/pam.d/groupdel:auth		required	pam_unix.so
/etc/pam.d/groupdel:account		required	pam_unix.so
/etc/pam.d/groupdel:session		required	pam_unix.so
/etc/pam.d/crond:auth      required    pam_unix.so
/etc/pam.d/crond:account   required    pam_unix.so
/etc/pam.d/crond:session   required    pam_unix.so
/etc/pam.d/su-l:auth		required	pam_unix.so
/etc/pam.d/su-l:account		required	pam_unix.so
/etc/pam.d/su-l:session		required	pam_unix.so
/etc/pam.d/userdel:auth		required	pam_unix.so
/etc/pam.d/userdel:account		required	pam_unix.so
/etc/pam.d/userdel:session		required	pam_unix.so
/etc/pam.d/newusers:auth		required	pam_unix.so
/etc/pam.d/newusers:account		required	pam_unix.so
/etc/pam.d/newusers:session		required	pam_unix.so
/etc/pam.d/newusers:password 	required 	pam_unix.so sha512 shadow
/etc/pam.d/system-services:session   required    pam_unix.so
/etc/pam.d/useradd:auth		required	pam_unix.so
/etc/pam.d/useradd:account		required	pam_unix.so
/etc/pam.d/useradd:session		required	pam_unix.so
/etc/pam.d/chpasswd:auth		required	pam_unix.so
/etc/pam.d/chpasswd:account		required	pam_unix.so
/etc/pam.d/chpasswd:session		required	pam_unix.so
/etc/pam.d/chpasswd:password 	required 	pam_unix.so sha512 shadow
/etc/pam.d/usermod:auth		required	pam_unix.so
/etc/pam.d/usermod:account		required	pam_unix.so
/etc/pam.d/usermod:session		required	pam_unix.so
/etc/pam.d/system-auth:auth      required  pam_unix.so     try_first_pass nullok
/etc/pam.d/system-auth:account   required  pam_unix.so
/etc/pam.d/system-auth:password  required  pam_unix.so     try_first_pass nullok sha512 shadow
/etc/pam.d/system-auth:session   required  pam_unix.so
/etc/pam.d/groupadd:auth		required	pam_unix.so
/etc/pam.d/groupadd:account		required	pam_unix.so
/etc/pam.d/groupadd:session		required	pam_unix.so
/etc/pam.d/passwd:#password	required	pam_unix.so sha512 shadow use_authtok
/etc/pam.d/passwd:password	required	pam_unix.so sha512 shadow nullok
/etc/pam.d/other:auth		required	pam_unix.so
/etc/pam.d/other:account		required	pam_unix.so
/etc/pam.d/other:password	required	pam_unix.so
/etc/pam.d/other:session		required	pam_unix.so
/etc/pam.d/su:auth		required	pam_unix.so
/etc/pam.d/su:account		required	pam_unix.so
/etc/pam.d/su:session		required	pam_unix.so
/etc/pam.d/chage:auth		required	pam_unix.so
/etc/pam.d/chage:account		required	pam_unix.so
/etc/pam.d/chage:session		required	pam_unix.so
/etc/pam.d/chsh:auth		required	pam_unix.so
/etc/pam.d/chsh:account		required	pam_unix.so
/etc/pam.d/chsh:session		required	pam_unix.so

I figured I should ask for help before mucking things up even further.

Last edited by orrin5250 (2018-05-01 13:15:57)

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#2 2018-04-30 16:26:31

d_fajardo
Member
Registered: 2017-07-28
Posts: 1,689

Re: [SOLVED] Oops - upgraded system without addressing news item re: pam

If it is of any help, I received this email from arch-announce:

The new version of glibc removes support for NIS and NIS+. The default
`/etc/nsswitch.conf` file provided by `filesystem` package already
reflects this change. Please make sure to merge pacnew file if it exists
prior to upgrade.

NIS functionality can still be enabled by installing `libnss_nis`
package. There is no replacement for NIS+ in the official repositories.

`pam 1.3.0-2` no longer ships pam_unix2 module and `pam_unix_*.so`
compatibility symlinks. Before upgrading, review PAM configuration files
in the `/etc/pam.d` directory and replace removed modules with
`pam_unix.so`. Users of pam_unix2 should also reset their passwords
after such change. Defaults provided by `pambase` package do not need
any modifications.

URL: https://www.archlinux.org/news/glibc-227-2-and-pam-130-2-may-require-manual-intervention/

I made a different mistake interpreting this message on this thread. Not sure though why you have a faulty pam_unix.so module.

Last edited by d_fajardo (2018-04-30 16:30:13)

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#3 2018-04-30 17:32:03

eschwartz
Fellow
Registered: 2014-08-08
Posts: 4,097

Re: [SOLVED] Oops - upgraded system without addressing news item re: pam

PAM unable to dlopen(/usr/lib/security/pam_unix.so): /usr/lib/libpthread.so.0: symbol __sigtimedwait, version GLIBC_PRIVATE not defined in file libc.so.6 with link time reference

Your glibc seems to be borked somehow, so software is somehow running with bits and pieces of an older glibc mixed with bits and pieces of a newer glibc. Do you have an extra copy of glibc not tracked by the package manager, by any chance?

EDIT: Or actually, try restarting cronie, it probably has an older copy of libc from before the update loaded into memory but then uses dlopen() to load the new pam module compiled against the new libc.

Last edited by eschwartz (2018-04-30 17:34:25)

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#4 2018-04-30 17:42:34

progandy
Member
Registered: 2012-05-17
Posts: 5,322

Re: [SOLVED] Oops - upgraded system without addressing news item re: pam

Eschwartz wrote:

EDIT: Or actually, try restarting cronie, it probably has an older copy of libc from before the update loaded into memory but then uses dlopen() to load the new pam module compiled against the new libc.

If that works, then I suggest a reboot. After a glibc update it is a good idea to restart the system, since even systemd depends on it.

| alias CUTF='LANG=en_XX.UTF-8@POSIX ' | alias ENGLISH='LANG=C.UTF-8 ' |

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#5 2018-04-30 17:54:08

eschwartz
Fellow
Registered: 2014-08-08
Posts: 4,097

Re: [SOLVED] Oops - upgraded system without addressing news item re: pam

progandy wrote:
Eschwartz wrote:

EDIT: Or actually, try restarting cronie, it probably has an older copy of libc from before the update loaded into memory but then uses dlopen() to load the new pam module compiled against the new libc.

If that works, then I suggest a reboot. After a glibc update it is a good idea to restart the system, since even systemd depends on it.

Um, no.

This is specifically a problem with programs that use dlopen, since the thing it is dlopen()'ing does not necessarily match the libraries which were loaded by ld.so when the binary was first opened.

This is not Windows. You don't have to reboot for every random update... or even  most of them. Any system component other than the kernel (without live kernel patching) can be restarted without rebooting the system itself, as long as you know what needs to be rebooted.
But the only thing that restarting actually gets you, is making sure you actually run the updated version. Because otherwise it will still be running code form memory.

See also, running an Arch Linux server: https://lists.archlinux.org/pipermail/a … 33791.html

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#6 2018-04-30 18:02:18

progandy
Member
Registered: 2012-05-17
Posts: 5,322

Re: [SOLVED] Oops - upgraded system without addressing news item re: pam

Eschwartz wrote:

This is specifically a problem with programs that use dlopen, since the thing it is dlopen()'ing does not necessarily match the libraries which were loaded by ld.so when the binary was first opened.

This is not Windows. You don't have to reboot for every random update... or even  most of them.

Right I know. It just makes me feel better to reboot after a big system upgrade. Otherwise, I'd continue running it for at least a week and then wonder why something doesn't work as expected.

| alias CUTF='LANG=en_XX.UTF-8@POSIX ' | alias ENGLISH='LANG=C.UTF-8 ' |

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#7 2018-05-01 13:15:36

orrin5250
Member
Registered: 2016-10-12
Posts: 39

Re: [SOLVED] Oops - upgraded system without addressing news item re: pam

Much thanks.  All is well after a reboot.

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