"notmuch new" does not remove my file from db (double slash problem ?)

diff --git a/da/eaf57d89735bb437fd7a79286dba08256682aa b/da/eaf57d89735bb437fd7a79286dba08256682aa
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+Date: Tue, 14 Apr 2015 12:57:20 +0200\r
+From: francois@avalenn.eu\r
+To: notmuch@notmuchmail.org\r
+Subject: "notmuch new" does not remove my file from db (double slash problem\r
+ ?)\r
+Message-ID: <20150414105720.GH3224@fjo-extia-HPdeb.nsn-net.net>\r
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+\r
+Hello list,\r
+\r
+I have a little problem here.\r
+I have a message of which I had multiple copies and I deleted one of\r
+them but "notmuch new" does not suppress this copy.\r
+\r
+    $ notmuch search --output=files id:20150216180408.HA14616@myhost\r
+    /home/francois/Maildir/my_first_box/cur/1424110151_0.24869.myhost,U=742:2,S\r
+    /home/francois/Maildir/my_second_box/cur/1424110163_0.24869.myhost,U=14486:2,S\r
+    /home/francois/Maildir/my_third_box//cur/1429004021.3224_3.myhost:2,S\r
+\r
+The last copy is the one I deleted.\r
+I tried to readd the message to this box and after I have this status :\r
+\r
+    $ cp ~/Maildir/my_second_box/cur/1424110163_0.24869.myhost,U=14486:2,S ~/Maildir/my_third_box/cur\r
+    $ notmuch new\r
+    Processed 1 file in almost no time.\r
+    No new mail.\r
+    $ notmuch search --output=files id:20150216180408.HA14616@myhost\r
+    /home/francois/Maildir/my_first_box/cur/1424110151_0.24869.myhost,U=742:2,S\r
+    /home/francois/Maildir/my_second_box/cur/1424110163_0.24869.myhost,U=14486:2,S\r
+    /home/francois/Maildir/my_third_box/cur/1429004021.3224_3.myhost:2,S\r
+    /home/francois/Maildir/my_third_box//cur/1429004021.3224_3.myhost:2,S\r
+\r
+And if I redelete it I come back to beginning :\r
+\r
+    $ rm ~/Maildir/my_third_box/cur/1429004021.3224_3.myhost:2,S\r
+    $ notmuch new\r
+    No new mail. Detected 1 file rename.\r
+    $ notmuch search --output=files id:20150216180408.HA14616@myhost\r
+    /home/francois/Maildir/my_first_box/cur/1424110151_0.24869.myhost,U=742:2,S\r
+    /home/francois/Maildir/my_second_box/cur/1424110163_0.24869.myhost,U=14486:2,S\r
+    /home/francois/Maildir/my_third_box//cur/1429004021.3224_3.myhost:2,S\r
+\r
+\r
+I don't know how the file path with double slash was added in the\r
+first place to the DB but I have a real problem with it.\r
+\r
+Anyone have any idea of how I can solve this ?\r
+\r
+    $ notmuch --version\r
+    notmuch 0.18.2\r
+    $  lsb_release -a\r
+    No LSB modules are available.\r
+    Distributor ID: Debian\r
+    Description:    Debian GNU/Linux 8.0 (jessie)\r
+    Release:        8.0\r
+    Codename:       jessie\r
+    \r
+\r
+\r
+\r
+F.\r