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#1 2019-02-19 08:47:02

koogel
Member
Registered: 2018-05-15
Posts: 12

[SOLVED] Conflict error in java updating

Here conflict during updating - Please advise!

(1/1) checking for file conflicts                                   [#####################################] 100%
error: failed to commit transaction (conflicting files)
jre: /usr/lib/jvm/java-11-jdk/bin/java exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/bin/jjs exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/bin/jrunscript exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/bin/keytool exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/bin/pack200 exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/bin/rmid exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/bin/rmiregistry exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/bin/unpack200 exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/conf exists in filesystem
jre: /usr/lib/jvm/java-11-jdk/lib/classlist exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/jexec exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/jli/libjli.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/jrt-fs.jar exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/jvm.cfg exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libawt.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libawt_headless.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libawt_xawt.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libdt_socket.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libextnet.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libfontmanager.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libinstrument.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libj2gss.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libj2pcsc.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libj2pkcs11.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libjaas.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libjava.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libjavajpeg.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libjawt.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libjdwp.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libjimage.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libjsig.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libjsound.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/liblcms.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libmanagement.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libmanagement_agent.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libmanagement_ext.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libmlib_image.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libnet.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libnio.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libprefs.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/librmi.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libsctp.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libsplashscreen.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libsunec.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libunpack.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libverify.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/libzip.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/modules exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/psfont.properties.ja exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/psfontj2d.properties exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/security/blacklisted.certs exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/security/cacerts exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/security/default.policy exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/security/public_suffix_list.dat exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/server/Xusage.txt exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/server/libjsig.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/server/libjvm.so exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/lib/tzdb.dat exists in filesystem (owned by jdk)
jre: /usr/lib/jvm/java-11-jdk/release exists in filesystem (owned by jdk)
Errors occurred, no packages were upgraded.

Last edited by koogel (2019-02-19 13:43:30)

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#2 2019-02-19 08:56:00

Lone_Wolf
Member
From: Netherlands, Europe
Registered: 2005-10-04
Posts: 11,919

Re: [SOLVED] Conflict error in java updating

There's no jdk package in repos, are you using https://aur.archlinux.org/packages/jdk from AUR ?

Post full command and output please.

Disliking systemd intensely, but not satisfied with alternatives so focusing on taming systemd.


(A works at time B)  && (time C > time B ) ≠  (A works at time C)

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#3 2019-02-19 09:18:37

koogel
Member
Registered: 2018-05-15
Posts: 12

Re: [SOLVED] Conflict error in java updating

I am not sure, so here output may help.. - Maybe can remove one of these 2 java?? 

[mgarch_i3@archi3host ~]$ archlinux-java status
Available Java environments:
  java-11-jdk
  java-8-openjdk (default)

Here first part with command (did not want to put here long output..):

yay -Syu
:: Synchronizing package databases...
 core is up to date
 extra is up to date
 community is up to date
 multilib is up to date
:: Starting full system upgrade...
 there is nothing to do
:: Searching databases for updates...
:: Searching AUR for updates...
 -> Missing AUR Packages:  gegl02  libnm-gtk  pcmciautils
:: 4 Packages to upgrade.
4  aur/android-studio  3.2.1.0-1      -> 3.3.1.0-1
3  aur/google-chrome   71.0.3578.98-1 -> 72.0.3626.109-1
2  aur/jdk             11.0.1-1       -> 11.0.2-1
1  aur/yay             9.0.1-3        -> 9.1.0-1
==> Packages to not upgrade: (eg: 1 2 3, 1-3, ^4 or repo name)
==> 
:: Checking for conflicts...
:: Checking for inner conflicts...
[Aur: 5]  jre-11.0.2-1  android-studio-3.3.1.0-1  google-chrome-72.0.3626.109-1  jdk-11.0.2-1  yay-9.1.0-1

  5 jre                                      (Build Files Exist)
  4 android-studio                           (Installed) (Build Files Exist)
  3 google-chrome                            (Installed) (Build Files Exist)
  2 jdk                                      (Installed) (Build Files Exist)
  1 yay                                      (Installed) (Build Files Exist)
==> Packages to cleanBuild?
==> [N]one [A]ll [Ab]ort [I]nstalled [No]tInstalled or (1 2 3, 1-3, ^4)
==> 
:: PKGBUILD up to date, Skipping (1/5): android-studio
:: PKGBUILD up to date, Skipping (2/5): yay
:: PKGBUILD up to date, Skipping (3/5): google-chrome
:: PKGBUILD up to date, Skipping (4/5): jre
:: PKGBUILD up to date, Skipping (5/5): jdk
  5 jre                                      (Build Files Exist)
  4 android-studio                           (Installed) (Build Files Exist)
  3 google-chrome                            (Installed) (Build Files Exist)
  2 jdk                                      (Installed) (Build Files Exist)
  1 yay                                      (Installed) (Build Files Exist)
==> [N]one [A]ll [Ab]ort [I]nstalled [No]tInstalled or (1 2 3, 1-3, ^4)
==> Diffs to show?
==> 
:: Parsing SRCINFO (1/5): jre
:: Parsing SRCINFO (2/5): android-studio
:: Parsing SRCINFO (3/5): google-chrome
:: Parsing SRCINFO (4/5): jdk
:: Parsing SRCINFO (5/5): yay
==> Making package: jre 11.0.2-1 (IST 10:40:24 2019 פבר 19 ג')
==> Retrieving sources...
  -> Found jdk-11.0.2_linux-x64_bin.tar.gz
==> Validating source files with sha256sums...
    jdk-11.0.2_linux-x64_bin.tar.gz ... Passed
==> Cleaning up...
==> Making package: android-studio 3.3.1.0-1 (IST 10:40:24 2019 פבר 19 ג')
==> Retrieving sources...
  -> Found android-studio-ide-182.5264788-linux.zip
  -> Found android-studio.desktop
==> Validating source files with sha256sums...
    android-studio-ide-182.5264788-linux.zip ... Passed
    android-studio.desktop ... Passed
==> Cleaning up...
==> Making package: google-chrome 72.0.3626.109-1 (IST 10:40:35 2019 פבר 19 ג')
==> Retrieving sources...
  -> Found google-chrome-stable_72.0.3626.109_amd64.deb
  -> Found eula_text.html
  -> Found google-chrome-stable.sh
==> Validating source files with sha512sums...
    google-chrome-stable_72.0.3626.109_amd64.deb ... Passed
    eula_text.html ... Passed
    google-chrome-stable.sh ... Passed
==> Cleaning up...
==> Making package: jdk 11.0.2-1 (IST 10:40:36 2019 פבר 19 ג')
==> Retrieving sources...
  -> Found jdk-11.0.2_linux-x64_bin.tar.gz
  -> Found java.desktop
  -> Found jconsole.desktop
  -> Found jshell.desktop
  -> Found java_16.png
  -> Found java_48.png
==> Validating source files with sha256sums...
    jdk-11.0.2_linux-x64_bin.tar.gz ... Passed
    java.desktop ... Passed
    jconsole.desktop ... Passed
    jshell.desktop ... Passed
    java_16.png ... Passed
    java_48.png ... Passed
==> Cleaning up...
==> Making package: yay 9.1.0-1 (IST 10:40:38 2019 פבר 19 ג')
==> Retrieving sources...
  -> Found yay-9.1.0.tar.gz
==> Validating source files with sha1sums...
    yay-9.1.0.tar.gz ... Passed
==> Cleaning up...
==> Making package: jre 11.0.2-1 (IST 10:40:39 2019 פבר 19 ג')
==> Checking runtime dependencies...
==> Checking buildtime dependencies...
==> Retrieving sources...
  -> Found jdk-11.0.2_linux-x64_bin.tar.gz
==> Validating source files with sha256sums...
    jdk-11.0.2_linux-x64_bin.tar.gz ... Passed
==> Removing existing $srcdir/ directory...
==> Extracting sources...
  -> Extracting jdk-11.0.2_linux-x64_bin.tar.gz with bsdtar
==> Sources are ready.
==> Making package: jre 11.0.2-1 (IST 10:40:48 2019 פבר 19 ג')
==> Checking runtime dependencies...
==> Checking buildtime dependencies...
==> WARNING: Using existing $srcdir/ tree
==> Sources are ready.
==> Cleaning up...
==> jre-11.0.2-1 already made -- skipping build
loading packages...
resolving dependencies...
looking for conflicting packages...

Packages (1) jre-11.0.2-1

Total Installed Size:  156.32 MiB

:: Proceed with installation? [Y/n] 
(1/1) checking keys in keyring                                      [#####################################] 100%
(1/1) checking package integrity                                    [#####################################] 100%
(1/1) loading package files                                         [#####################################] 100%
(1/1) checking for file conflicts                                   [#####################################] 100%
error: failed to commit transaction (conflicting files)

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#4 2019-02-19 10:05:50

Lone_Wolf
Member
From: Netherlands, Europe
Registered: 2005-10-04
Posts: 11,919

Re: [SOLVED] Conflict error in java updating

It looks like you have a conflict between jre and jdk , both from aur.
since jdk requires jre, best option is probably to remove both first .

If you're sure you can't use openjdk 11 but need oracle's version :
build & install jre first , then build & install jdk.

While your problem doesn't look like it was caused by yay, imo using jay made it harder for you to see what went wrong.
I recommend you stick to pacman and manual builds using makepkg until you understand better what happens.

Disliking systemd intensely, but not satisfied with alternatives so focusing on taming systemd.


(A works at time B)  && (time C > time B ) ≠  (A works at time C)

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#5 2019-02-19 13:43:09

koogel
Member
Registered: 2018-05-15
Posts: 12

Re: [SOLVED] Conflict error in java updating

After removing java-11-jdk, reinstall it and changing defualt java to java-11-jdk, system updating run ok with no errors.
At the moment, looklike everything ok - If will be similar error in the next time, I will try to use pacman instead of yay, in order to find out the problem..
Thanks

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