In the thread at id:87fsfuuxwn.fsf@thinkbox, a bug is discussed where
the point and hl-line overlay get out of sync, leading the user to
open the wrong message. As far as I can tell this is caused by
notmuch-hl-mode being invoked too early.

This change bypasses the logic preventing notmuch-search-hook being
called only once, so that the overlay is updated later after after the
buffer is full(er).

This change may lead to the overlay being updated multiple times; if
this is annoying we can add a similar buffer local variable to ensure
it is only called once.

The extra logic to check notmuch-search-target-line reduces the
flicker somewhat by not highlighting the first line every time.
---
 emacs/notmuch.el           | 8 ++++++--
 test/T312-emacs-hl-line.sh | 2 --
 2 files changed, 6 insertions(+), 4 deletions(-)

diff --git a/emacs/notmuch.el b/emacs/notmuch.el
index 934ec894..2d7e0422 100644
--- a/emacs/notmuch.el
+++ b/emacs/notmuch.el
@@ -126,10 +126,9 @@ there will be called at other points of notmuch execution."
   :type 'file
   :group 'notmuch)
 
-(defcustom notmuch-search-hook '(notmuch-hl-line-mode)
+(defcustom notmuch-search-hook nil
   "List of functions to call when notmuch displays the search results."
   :type 'hook
-  :options '(notmuch-hl-line-mode)
   :group 'notmuch-search
   :group 'notmuch-hooks)
 
@@ -930,6 +929,11 @@ sets the :orig-tag property."
        (notmuch-sexp-parse-partial-list 'notmuch-search-append-result
                                         results-buf))
       (with-current-buffer results-buf
+       (when (and notmuch-hl-line
+                  (>=
+                   (line-number-at-pos (point-max) t)
+                   (or notmuch-search-target-line -1)))
+         (notmuch-hl-line-mode))
        (notmuch--search-hook-wrapper)))))
 
 ;;; Commands (and some helper functions used by them)
diff --git a/test/T312-emacs-hl-line.sh b/test/T312-emacs-hl-line.sh
index 4cceed30..4697b671 100755
--- a/test/T312-emacs-hl-line.sh
+++ b/test/T312-emacs-hl-line.sh
@@ -104,7 +104,6 @@ test_emacs_expect_t '(let ((notmuch-hl-line t))
                           (line-number-at-pos (overlay-start hl-line-overlay)) 
12))'
 
 test_begin_subtest "line 12, search, refresh"
-test_subtest_known_broken
 test_emacs_expect_t '(let ((notmuch-hl-line t))
                        (notmuch-search "tag:inbox")
                        (notmuch-test-wait)
@@ -140,7 +139,6 @@ test_emacs_expect_t '(let ((notmuch-hl-line t))
                           (line-number-at-pos (overlay-start hl-line-overlay)) 
12))'
 
 test_begin_subtest "hl-line disabled, search"
-test_subtest_known_broken
 test_emacs_expect_t '(let ((notmuch-hl-line nil))
                        (notmuch-search "tag:inbox")
                        (notmuch-test-wait)
-- 
2.43.0

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