Mbsync setup with an Infomaniak email account with the following ~/.mbsyncrc. The list of folders is hardcoded in Patterns:

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IMAPAccount infomaniak
Host mail.infomaniak.com
Port 993
User $USER
Pass  $PASS
SSLType IMAPS

IMAPStore info-remote
Account infomaniak

MaildirStore info-local
Path ~/mail/
Inbox ~/mail/INBOX/
Subfolders Verbatim

Channel info
Far :info-remote:
Near :info-local:
Patterns INBOX Archives Drafts Sent Spam Trash
Create Both
Expunge Both
SyncState *

Try it with mbsync -a.

For faster search, we create a local database for mails. This adds another layer on our stack as we will need to synchronize the database with locat files. notmuch do not delete files ! Configuration is simple:

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notmuch init

with doom-emacs, enable the notmuch interface in ~/.config/doom.d/init.el

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       :email
       notmuch

Some setup is required for inbox: I want mails tagged as "new" only. Then archiving and deleting should remove the appropriate tags (note: afew should) Deleting is done either with d (adds +deleted) or SPC m d (call +notmuch-delete-tags defined below).

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;; Mail settings
(after! notmuch
  (setq +notmuch-sync-backend "notmuch new"
        +notmuch-delete-tags '("+deleted" "-inbox" "-new" "-unread")
        +notmuch-home-function (lambda () (notmuch-search "tag:new"))
        notmuch-archive-tags '("+archive" "-inbox" "-new" "-unread")))

(setq sendmail-program "/usr/bin/msmtp" )

defaults
auth           on
tls            on
tls_trust_file /etc/ssl/certs/ca-certificates.crt
logfile        ~/.msmtp.log

account        infomaniak
host           mail.infomaniak.com
port           465
tls_starttls   off
from           $EMAIL
user           $EMAIL
password       $PASS

account default: infomaniak

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$ chmod 600 ~/.msmtprc

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echo "this is some content2" | msmtp -a infomaniak -- $EMAIL

notmuch will not rename or move files around. afew offers an easy way to do that. I use the default filters and I move files accordingly.

# This is the default filter chain
[SpamFilter]
[KillThreadsFilter]
[ListMailsFilter]
[ArchiveSentMailsFilter]

# Disable default behavior (all message not spam and not 'killed' have the inbox tag)
# [InboxFilter]

# Assume afew is run with --new
[Filter.1]
message = 'Remove new tag for archived and trashed mail'
query = folder:Archives OR tag:archive OR folder:Trash or tag:deleted
tags = -new;+archive

[MailMover]
folders = INBOX Archives
rename = True

# rules
# Assume afew is run with --new
INBOX = 'tag:deleted':Trash 'tag:archive':Archives
Archives = 'tag:deleted':Trash

Create ~/mail/.notmuch/hooks/pre-new with

#!/bin/sh
mbsync -a

Create ~/mail/.notmuch/hooks/post-new with

#!/bin/sh
afew --new --tag 
afew --new --move

Make both files executables with chmod +x. Then notmuch new will sync first, add tags and use afew for cleanup !