This adds new state variable for the mail root, and uses it most
places db_path was used. The notable exception is dumps from backups.
---
 notmuch-new.c            | 54 ++++++++++++++++++++++++++--------------
 test/T055-path-config.sh | 41 ++++++++++++++++++++++++++++++
 2 files changed, 76 insertions(+), 19 deletions(-)

diff --git a/notmuch-new.c b/notmuch-new.c
index 21e66af1..63ac10a6 100644
--- a/notmuch-new.c
+++ b/notmuch-new.c
@@ -43,6 +43,7 @@ enum verbosity {
 
 typedef struct {
     const char *db_path;
+    const char *mail_root;
 
     int output_is_a_tty;
     enum verbosity verbosity;
@@ -307,18 +308,18 @@ _setup_ignore (notmuch_database_t *notmuch, 
add_files_state_t *state)
 }
 
 static char *
-_get_relative_path (const char *db_path, const char *dirpath, const char 
*entry)
+_get_relative_path (const char *mail_root, const char *dirpath, const char 
*entry)
 {
-    size_t db_path_len = strlen (db_path);
+    size_t mail_root_len = strlen (mail_root);
 
     /* paranoia? */
-    if (strncmp (dirpath, db_path, db_path_len) != 0) {
+    if (strncmp (dirpath, mail_root, mail_root_len) != 0) {
        fprintf (stderr, "Warning: '%s' is not a subdirectory of '%s'\n",
-                dirpath, db_path);
+                dirpath, mail_root);
        return NULL;
     }
 
-    dirpath += db_path_len;
+    dirpath += mail_root_len;
     while (*dirpath == '/')
        dirpath++;
 
@@ -346,7 +347,7 @@ _entry_in_ignore_list (add_files_state_t *state, const char 
*dirpath,
     if (state->ignore_regex_length == 0)
        return false;
 
-    path = _get_relative_path (state->db_path, dirpath, entry);
+    path = _get_relative_path (state->mail_root, dirpath, entry);
     if (! path)
        return false;
 
@@ -1047,22 +1048,34 @@ _maybe_upgrade (notmuch_database_t *notmuch, 
add_files_state_t *state) {
     if (notmuch_database_needs_upgrade (notmuch)) {
        time_t now = time (NULL);
        struct tm *gm_time = gmtime (&now);
+       struct stat st;
+       int err;
        notmuch_status_t status;
        char *dot_notmuch_path = talloc_asprintf (notmuch, "%s/%s", 
state->db_path, ".notmuch");
 
+       const char *backup_name;
+
+       err = stat(dot_notmuch_path, &st);
+       if (err) {
+           if (errno == ENOENT) {
+               dot_notmuch_path = NULL;
+           } else {
+               fprintf(stderr, "Failed to stat %s: %s\n", dot_notmuch_path, 
strerror(errno));
+               return EXIT_FAILURE;
+           }
+       }
+
        /* since dump files are written atomically, the amount of
         * harm from overwriting one within a second seems
         * relatively small. */
-
-       const char *backup_name =
-           talloc_asprintf (notmuch, "%s/dump-%04d%02d%02dT%02d%02d%02d.gz",
-                            dot_notmuch_path,
-                            gm_time->tm_year + 1900,
-                            gm_time->tm_mon + 1,
-                            gm_time->tm_mday,
-                            gm_time->tm_hour,
-                            gm_time->tm_min,
-                            gm_time->tm_sec);
+       backup_name = talloc_asprintf (notmuch, 
"%s/dump-%04d%02d%02dT%02d%02d%02d.gz",
+                                      dot_notmuch_path ? dot_notmuch_path : 
state->db_path,
+                                      gm_time->tm_year + 1900,
+                                      gm_time->tm_mon + 1,
+                                      gm_time->tm_mday,
+                                      gm_time->tm_hour,
+                                      gm_time->tm_min,
+                                      gm_time->tm_sec);
 
        if (state->verbosity >= VERBOSITY_NORMAL) {
            printf ("Welcome to a new version of notmuch! Your database will 
now be upgraded.\n");
@@ -1104,7 +1117,7 @@ notmuch_new_command (unused(notmuch_config_t *config), 
notmuch_database_t *notmu
     };
     struct timeval tv_start;
     int ret = 0;
-    const char *db_path;
+    const char *db_path, *mail_root;
     struct sigaction action;
     _filename_node_t *f;
     int opt_index;
@@ -1149,6 +1162,9 @@ notmuch_new_command (unused(notmuch_config_t *config), 
notmuch_database_t *notmu
     db_path = notmuch_config_get (notmuch, NOTMUCH_CONFIG_DATABASE_PATH);
     add_files_state.db_path = db_path;
 
+    mail_root = notmuch_config_get (notmuch, NOTMUCH_CONFIG_MAIL_ROOT);
+    add_files_state.mail_root = mail_root;
+
     if (! _setup_ignore (notmuch, &add_files_state))
        return EXIT_FAILURE;
 
@@ -1175,7 +1191,7 @@ notmuch_new_command (unused(notmuch_config_t *config), 
notmuch_database_t *notmu
 
     if (notmuch_database_get_revision (notmuch, NULL) == 0) {
        int count = 0;
-       count_files (db_path, &count, &add_files_state);
+       count_files (mail_root, &count, &add_files_state);
        if (interrupted)
            return EXIT_FAILURE;
 
@@ -1221,7 +1237,7 @@ notmuch_new_command (unused(notmuch_config_t *config), 
notmuch_database_t *notmu
        timer_is_active = true;
     }
 
-    ret = add_files (notmuch, db_path, &add_files_state);
+    ret = add_files (notmuch, mail_root, &add_files_state);
     if (ret)
        goto DONE;
 
diff --git a/test/T055-path-config.sh b/test/T055-path-config.sh
index 19a8a4ab..6df17f80 100755
--- a/test/T055-path-config.sh
+++ b/test/T055-path-config.sh
@@ -95,6 +95,47 @@ EOF
     notmuch search --output=messages '*' > OUTPUT
     test_expect_equal_file EXPECTED OUTPUT
 
+    test_begin_subtest "use existing database ($config)"
+    output=$(notmuch new)
+    test_expect_equal "$output" 'No new mail.'
+
+    test_begin_subtest "create database ($config)"
+    rm -rf $DATABASE_PATH/{.notmuch,}/xapian
+    notmuch new
+    output=$(notmuch count '*')
+    test_expect_equal "$output" '52'
+
+    test_begin_subtest "detect new files ($config)"
+    generate_message
+    generate_message
+    notmuch new
+    output=$(notmuch count '*')
+    test_expect_equal "$output" '54'
+
+    test_begin_subtest "Show a raw message ($config)"
+    add_message
+    notmuch show --format=raw id:$gen_msg_id > OUTPUT
+    test_expect_equal_file $gen_msg_filename OUTPUT
+    rm -f $gen_msg_filename
+
+    test_begin_subtest "reply ($config)"
+    add_message '[from]="Sender <sen...@example.com>"' \
+               [to]=test_su...@notmuchmail.org \
+               [subject]=notmuch-reply-test \
+               '[date]="Tue, 05 Jan 2010 15:43:56 -0000"' \
+               '[body]="basic reply test"'
+    notmuch reply id:${gen_msg_id} 2>&1 > OUTPUT
+    cat <<EOF > EXPECTED
+From: Notmuch Test Suite <test_su...@notmuchmail.org>
+Subject: Re: notmuch-reply-test
+To: Sender <sen...@example.com>
+In-Reply-To: <${gen_msg_id}>
+References: <${gen_msg_id}>
+
+On Tue, 05 Jan 2010 15:43:56 -0000, Sender <sen...@example.com> wrote:
+> basic reply test
+EOF
+    test_expect_equal_file EXPECTED OUTPUT
     restore_config
 done
 
-- 
2.30.0
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