Package system broken on (almost) new installation

Support
1

Hi there,
I just switched from Kubuntu to Manjaro-KDE. Most of the things went easy, but now I have a problem with the packaging system
When I try

pamac update --force-refresh

I get

Synchronizing package databases...
Error: failed retrieving file 'custom.db' from disk : Couldn't open file /home/custompkgs/custom.db
failed to retrieve some files
Failed to synchronize databases
Preparing...
Synchronizing package databases...
Refreshing core.db...                                                                                                                                                                                                                                                 
Refreshing extra.db...                                                                                                                                                                                                                                                
Refreshing multilib.db...                                                                                                                                                                                                                                             
Error: failed retrieving file 'custom.db' from disk : Couldn't open file /home/custompkgs/custom.db                                                                                                                                                                   
failed to retrieve some files
Refreshing core.files...                                                                                                                                                                                                                                              
Refreshing extra.files...                                                                                                                                                                                                                                             
Refreshing multilib.files...                                                                                                                                                                                                                                          
Error: failed retrieving file 'custom.files' from disk : Couldn't open file /home/custompkgs/custom.files                                                                                                                                                             
failed to retrieve some files
Failed to synchronize databases
Error: Failed to prepare transaction: could not find database

And yes, there is no folder named /home/custompkgs

When I selcet ā€œrefresh databaseā€ in pamac-manager I get a

could not find database

I canot make updates via pamac-manager. Only get ā€œcould not find databaseā€

As I am totally new to manjaro I have no Idea, which additional information might be usefull

How can I fix the missing database?

2

So what is this ā€˜customā€™ repo you added and how did you do that?

If you dont know then please share the contents of /etc/pacman.conf (and anything in /etc/pacman.conf.d/ if you have any).

3

I cannot remember actively adding a repo (donā€™t even know how to do that).
I just activated AUR
From Debian I know /etc/apt/sources.lst.
Is there a similar technic in Manjaro?

4

Iā€™ve never seen anyone with a custom repository by accident.

But I suppose it could have happened some way ā€¦

ex:

cat /etc/pacman.conf
5

/etc/pcaman.conf:

#
# /etc/pacman.conf
#
# See the pacman.conf(5) manpage for option and repository directives

#
# GENERAL OPTIONS
#
[options]
# The following paths are commented out with their default values listed.
# If you wish to use different paths, uncomment and update the paths.
#RootDir     = /
#DBPath      = /var/lib/pacman/
CacheDir = /var/cache/pacman/pkg/
#LogFile     = /var/log/pacman.log
#GPGDir      = /etc/pacman.d/gnupg/
#HookDir     = /etc/pacman.d/hooks/
HoldPkg      = pacman glibc manjaro-system
#XferCommand = /usr/bin/curl -L -C - -f -o %o %u
#XferCommand = /usr/bin/wget --passive-ftp -c -O %o %u
#CleanMethod = KeepInstalled
#UseDelta    = 0.7
Architecture = auto

#IgnorePkg   =
#IgnorePkg   =
#IgnoreGroup =

#NoUpgrade   =
#NoExtract   =

# Misc options
#UseSyslog
#Color
#NoProgressBar
# We cannot check disk space from within a chroot environment
CheckSpace
#VerbosePkgLists
ParallelDownloads = 4

# By default, pacman accepts packages signed by keys that its local keyring
# trusts (see pacman-key and its man page), as well as unsigned packages.
SigLevel    = Required DatabaseOptional
LocalFileSigLevel = Optional
#RemoteFileSigLevel = Required

# NOTE: You must run `pacman-key --init` before first using pacman; the local
# keyring can then be populated with the keys of all official Manjaro Linux
# packagers with `pacman-key --populate archlinux manjaro`.

#
# REPOSITORIES
#   - can be defined here or included from another file
#   - pacman will search repositories in the order defined here
#   - local/custom mirrors can be added here or in separate files
#   - repositories listed first will take precedence when packages
#     have identical names, regardless of version number
#   - URLs will have $repo replaced by the name of the current repo
#   - URLs will have $arch replaced by the name of the architecture
#
# Repository entries are of the format:
#       [repo-name]
#       Server = ServerName
#       Include = IncludePath
#
# The header [repo-name] is crucial - it must be present and
# uncommented to enable the repo.
#

# The testing repositories are disabled by default. To enable, uncomment the
# repo name header and Include lines. You can add preferred servers immediately
# after the header, and they will be used before the default mirrors.

#
# /etc/pacman.conf
#
# See the pacman.conf(5) manpage for option and repository directives

#
# GENERAL OPTIONS
#
[options]
# The following paths are commented out with their default values listed.
# If you wish to use different paths, uncomment and update the paths.
#RootDir     = /
#DBPath      = /var/lib/pacman/
CacheDir = /var/cache/pacman/pkg/
#LogFile     = /var/log/pacman.log
#GPGDir      = /etc/pacman.d/gnupg/
#HookDir     = /etc/pacman.d/hooks/
HoldPkg      = pacman glibc manjaro-system
#XferCommand = /usr/bin/curl -L -C - -f -o %o %u
#XferCommand = /usr/bin/wget --passive-ftp -c -O %o %u
#CleanMethod = KeepInstalled
#UseDelta    = 0.7
Architecture = auto

#IgnorePkg   =
#IgnorePkg   =
#IgnoreGroup =

#NoUpgrade   =
#NoExtract   =

# Misc options
#UseSyslog
#Color
#NoProgressBar
# We cannot check disk space from within a chroot environment
CheckSpace
#VerbosePkgLists
ParallelDownloads = 4

# By default, pacman accepts packages signed by keys that its local keyring
# trusts (see pacman-key and its man page), as well as unsigned packages.
SigLevel    = Required DatabaseOptional
LocalFileSigLevel = Optional
#RemoteFileSigLevel = Required

# NOTE: You must run `pacman-key --init` before first using pacman; the local
# keyring can then be populated with the keys of all official Manjaro Linux
# packagers with `pacman-key --populate archlinux manjaro`.

#
# REPOSITORIES
#   - can be defined here or included from another file
#   - pacman will search repositories in the order defined here
#   - local/custom mirrors can be added here or in separate files
#   - repositories listed first will take precedence when packages
#     have identical names, regardless of version number
#   - URLs will have $repo replaced by the name of the current repo
#   - URLs will have $arch replaced by the name of the architecture
#
# Repository entries are of the format:
#       [repo-name]
#       Server = ServerName
#       Include = IncludePath
#
# The header [repo-name] is crucial - it must be present and
# uncommented to enable the repo.
#

# The testing repositories are disabled by default. To enable, uncomment the
# repo name header and Include lines. You can add preferred servers immediately
# after the header, and they will be used before the default mirrors.

#
# /etc/pacman.conf
#
# See the pacman.conf(5) manpage for option and repository directives

#
# GENERAL OPTIONS
#
[options]
# The following paths are commented out with their default values listed.
# If you wish to use different paths, uncomment and update the paths.
#RootDir     = /
#DBPath      = /var/lib/pacman/
CacheDir = /var/cache/pacman/pkg/
#LogFile     = /var/log/pacman.log
#GPGDir      = /etc/pacman.d/gnupg/
#HookDir     = /etc/pacman.d/hooks/
HoldPkg      = pacman glibc manjaro-system
#XferCommand = /usr/bin/curl -L -C - -f -o %o %u
#XferCommand = /usr/bin/wget --passive-ftp -c -O %o %u
#CleanMethod = KeepInstalled
#UseDelta    = 0.7
Architecture = auto

#IgnorePkg   =
#IgnorePkg   =
#IgnoreGroup =

#NoUpgrade   =
#NoExtract   =

# Misc options
#UseSyslog
#Color
#NoProgressBar
# We cannot check disk space from within a chroot environment
CheckSpace
#VerbosePkgLists
ParallelDownloads = 4

# By default, pacman accepts packages signed by keys that its local keyring
# trusts (see pacman-key and its man page), as well as unsigned packages.
SigLevel    = Required DatabaseOptional
LocalFileSigLevel = Optional
#RemoteFileSigLevel = Required

# NOTE: You must run `pacman-key --init` before first using pacman; the local
# keyring can then be populated with the keys of all official Manjaro Linux
# packagers with `pacman-key --populate archlinux manjaro`.

#
# REPOSITORIES
#   - can be defined here or included from another file
#   - pacman will search repositories in the order defined here
#   - local/custom mirrors can be added here or in separate files
#   - repositories listed first will take precedence when packages
#     have identical names, regardless of version number
#   - URLs will have $repo replaced by the name of the current repo
#   - URLs will have $arch replaced by the name of the architecture
#
# Repository entries are of the format:
#       [repo-name]
#       Server = ServerName
#       Include = IncludePath
#
# The header [repo-name] is crucial - it must be present and
# uncommented to enable the repo.
#

# The testing repositories are disabled by default. To enable, uncomment the
# repo name header and Include lines. You can add preferred servers immediately
# after the header, and they will be used before the default mirrors.

#
# /etc/pacman.conf
#
# See the pacman.conf(5) manpage for option and repository directives

#
# GENERAL OPTIONS
#
[options]
# The following paths are commented out with their default values listed.
# If you wish to use different paths, uncomment and update the paths.
#RootDir     = /
#DBPath      = /var/lib/pacman/
CacheDir = /var/cache/pacman/pkg/
#LogFile     = /var/log/pacman.log
#GPGDir      = /etc/pacman.d/gnupg/
#HookDir     = /etc/pacman.d/hooks/
HoldPkg      = pacman glibc manjaro-system
#XferCommand = /usr/bin/curl -L -C - -f -o %o %u
#XferCommand = /usr/bin/wget --passive-ftp -c -O %o %u
#CleanMethod = KeepInstalled
#UseDelta    = 0.7
Architecture = auto

#IgnorePkg   =
#IgnorePkg   =
#IgnoreGroup =

#NoUpgrade   =
#NoExtract   =

# Misc options
#UseSyslog
#Color
#NoProgressBar
# We cannot check disk space from within a chroot environment
CheckSpace
#VerbosePkgLists
ParallelDownloads = 4

# By default, pacman accepts packages signed by keys that its local keyring
# trusts (see pacman-key and its man page), as well as unsigned packages.
SigLevel    = Required DatabaseOptional
LocalFileSigLevel = Optional
#RemoteFileSigLevel = Required

# NOTE: You must run `pacman-key --init` before first using pacman; the local
# keyring can then be populated with the keys of all official Manjaro Linux
# packagers with `pacman-key --populate archlinux manjaro`.

#
# REPOSITORIES
#   - can be defined here or included from another file
#   - pacman will search repositories in the order defined here
#   - local/custom mirrors can be added here or in separate files
#   - repositories listed first will take precedence when packages
#     have identical names, regardless of version number
#   - URLs will have $repo replaced by the name of the current repo
#   - URLs will have $arch replaced by the name of the architecture
#
# Repository entries are of the format:
#       [repo-name]
#       Server = ServerName
#       Include = IncludePath
#
# The header [repo-name] is crucial - it must be present and
# uncommented to enable the repo.
#

# The testing repositories are disabled by default. To enable, uncomment the
# repo name header and Include lines. You can add preferred servers immediately
# after the header, and they will be used before the default mirrors.

[core]
SigLevel = PackageRequired
Include = /etc/pacman.d/mirrorlist

[extra]
SigLevel = PackageRequired
# If you want to run 32 bit applications on your x86_64 system,
# enable the multilib repositories as required here.
Include = /etc/pacman.d/mirrorlist

[multilib]
SigLevel = PackageRequired
Include = /etc/pacman.d/mirrorlist

# An example of a custom package repository.  See the pacman manpage for
# tips on creating your own repositories.
[custom]
SigLevel = Optional TrustAll
Server = file:///home/custompkgs

.
Content of /etc/pacman

$ LANG=C ls -Rl /etc/pacman.d/
/etc/pacman.d/:
total 12
drwxr-xr-x 4 root root 4096 15. Dez 20:10 gnupg
-rw-r--r-- 1 root root 6040 15. Dez 23:56 mirrorlist

/etc/pacman.d/gnupg:
total 2836
srw------- 1 root root       0 15. Dez 20:10 S.dirmngr
srw------- 1 root root       0 15. Dez 20:10 S.gpg-agent
srw------- 1 root root       0 15. Dez 20:10 S.gpg-agent.browser
srw------- 1 root root       0 15. Dez 20:10 S.gpg-agent.extra
srw------- 1 root root       0 15. Dez 20:10 S.gpg-agent.ssh
srw------- 1 root root       0 15. Dez 20:10 S.keyboxd
-rw-r--r-- 1 root root      17 15. Dez 16:10 gpg-agent.conf
-rw-r--r-- 1 root root     130 15. Dez 16:10 gpg.conf
drwx------ 2 root root    4096 15. Dez 16:10 openpgp-revocs.d
drwx------ 2 root root    4096 15. Dez 16:10 private-keys-v1.d
-rw-r--r-- 1 root root 1407574 15. Dez 16:11 pubring.gpg
-rw-r--r-- 1 root root 1407574 15. Dez 16:11 pubring.gpg~
-rw------- 1 root root       0 15. Dez 16:10 secring.gpg
-rw-r--r-- 1 root root   49152 15. Dez 16:10 tofu.db
-rw-r--r-- 1 root root   18120 15. Dez 16:11 trustdb.gpg
ls: cannot open directory '/etc/pacman.d/gnupg/openpgp-revocs.d': Permission denied
ls: cannot open directory '/etc/pacman.d/gnupg/private-keys-v1.d': Permission denied
6

This.

For some reason this example section was uncommented (the # in front of each line was removed), making it active.

Please either re-comment* or delete these lines.

* ex;

# [custom]
# SigLevel = Optional TrustAll
# Server = file:///home/custompkgs
2 Likes
7

Just for reference:

this is what the contents of /etc/pacman.conf should look like: (click to expand) 
#
# /etc/pacman.conf
#
# See the pacman.conf(5) manpage for option and repository directives

#
# GENERAL OPTIONS
#
[options]
# The following paths are commented out with their default values listed.
# If you wish to use different paths, uncomment and update the paths.
#RootDir     = /
#DBPath      = /var/lib/pacman/
#CacheDir    = /var/cache/pacman/pkg/
#LogFile     = /var/log/pacman.log
#GPGDir      = /etc/pacman.d/gnupg/
#HookDir     = /etc/pacman.d/hooks/
HoldPkg      = pacman glibc manjaro-system
#XferCommand = /usr/bin/curl -L -C - -f -o %o %u
#XferCommand = /usr/bin/wget --passive-ftp -c -O %o %u
#CleanMethod = KeepInstalled
Architecture = auto

#IgnorePkg   =
#IgnorePkg   =
#IgnoreGroup =

#NoUpgrade   =
#NoExtract   =

# Misc options
#UseSyslog
Color
#NoProgressBar
# We cannot check disk space from within a chroot environment
CheckSpace
#VerbosePkgLists
ParallelDownloads = 4
DownloadUser = alpm
#DisableSandbox
#ILoveCandy

# By default, pacman accepts packages signed by keys that its local keyring
# trusts (see pacman-key and its man page), as well as unsigned packages.
SigLevel    = Required DatabaseOptional
LocalFileSigLevel = Optional
#RemoteFileSigLevel = Required

# NOTE: You must run `pacman-key --init` before first using pacman; the local
# keyring can then be populated with the keys of all official Arch and Manjaro Linux
# packagers with `pacman-key --populate archlinux manjaro`.

#
# REPOSITORIES
#   - can be defined here or included from another file
#   - pacman will search repositories in the order defined here
#   - local/custom mirrors can be added here or in separate files
#   - repositories listed first will take precedence when packages
#     have identical names, regardless of version number
#   - URLs will have $repo replaced by the name of the current repo
#   - URLs will have $arch replaced by the name of the architecture
#
# Repository entries are of the format:
#       [repo-name]
#       Server = ServerName
#       Include = IncludePath
#
# The header [repo-name] is crucial - it must be present and
# uncommented to enable the repo.
#

[core]
Include = /etc/pacman.d/mirrorlist

[extra]
Include = /etc/pacman.d/mirrorlist

# If you want to run 32 bit applications on your x86_64 system,
# enable the multilib repositories as required here.

[multilib]
Include = /etc/pacman.d/mirrorlist

# An example of a custom package repository.  See the pacman manpage for
# tips on creating your own repositories.
#[custom]
#SigLevel = Optional TrustAll
#Server = file:///home/custompkgs

What you posted was several bits of it repeated multiple times.

2 Likes
8

Yea, that was it. Thanks a lot.

It will probably take me some time to switch from 25 Years of debian based systems to Manjaro, but I like it.

9

Huzzah.

Please also review your contents for what @Nachlese mentioned.

I am unsure of if it was a copy/paste error or if you actually have sections repeated in the file.

10

Oh, indeed. Pasting with double click? But anyway, anythingā€™s good now.

11

I simply highlight it and then paste with middle mouse button click.

12

The difference isnā€™t too massive - but youā€™ll miss having something like ā€˜dpkg reconfigureā€™ for something like HDDTemp.

But after 25 years, Iā€™m sure it wonā€™t be a huge deal.

How do you like the ZSH config?

13

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