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-rw-r--r--gnu/local.mk4
-rw-r--r--gnu/packages/patches/libxml2-parent-pointers.patch228
-rw-r--r--gnu/packages/patches/libxml2-terminating-newline.patch33
-rw-r--r--gnu/packages/patches/libxml2-xpath-recursion-limit.patch20
-rw-r--r--gnu/packages/patches/python-libxml2-python39-compat.patch94
-rw-r--r--gnu/packages/xml.scm25
6 files changed, 300 insertions, 104 deletions
diff --git a/gnu/local.mk b/gnu/local.mk
index 239a32d1fd..45abbd6223 100644
--- a/gnu/local.mk
+++ b/gnu/local.mk
@@ -1356,6 +1356,9 @@ dist_patch_DATA = \
%D%/packages/patches/libutils-remove-damaging-includes.patch \
%D%/packages/patches/libvdpau-va-gl-unbundle.patch \
%D%/packages/patches/libvpx-CVE-2016-2818.patch \
+ %D%/packages/patches/libxml2-parent-pointers.patch \
+ %D%/packages/patches/libxml2-terminating-newline.patch \
+ %D%/packages/patches/libxml2-xpath-recursion-limit.patch \
%D%/packages/patches/libxml2-xpath0-Add-option-xpath0.patch \
%D%/packages/patches/libxslt-generated-ids.patch \
%D%/packages/patches/libxt-guix-search-paths.patch \
@@ -1587,7 +1590,6 @@ dist_patch_DATA = \
%D%/packages/patches/python-pep8-stdlib-tokenize-compat.patch \
%D%/packages/patches/python-pyfakefs-remove-bad-test.patch \
%D%/packages/patches/python-flint-includes.patch \
- %D%/packages/patches/python-libxml2-python39-compat.patch \
%D%/packages/patches/python-libxml2-utf8.patch \
%D%/packages/patches/python-matplotlib-run-under-wayland-gtk3.patch \
%D%/packages/patches/python-mediafile-wavpack.patch \
diff --git a/gnu/packages/patches/libxml2-parent-pointers.patch b/gnu/packages/patches/libxml2-parent-pointers.patch
new file mode 100644
index 0000000000..1f0615c512
--- /dev/null
+++ b/gnu/packages/patches/libxml2-parent-pointers.patch
@@ -0,0 +1,228 @@
+Fix a regression in 2.9.12 where some corrupt XML structures were handled
+incorrectly:
+
+ https://gitlab.gnome.org/GNOME/libxml2/-/issues/255
+
+This is an amalgamation of these upstream commits:
+
+ https://gitlab.gnome.org/GNOME/libxml2/-/commit/85b1792e37b131e7a51af98a37f92472e8de5f3f
+ https://gitlab.gnome.org/GNOME/libxml2/-/commit/13ad8736d294536da4cbcd70a96b0a2fbf47070c
+
+diff --git a/HTMLtree.c b/HTMLtree.c
+--- a/HTMLtree.c
++++ b/HTMLtree.c
+@@ -744,7 +744,7 @@ void
+ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ xmlNodePtr cur, const char *encoding ATTRIBUTE_UNUSED,
+ int format) {
+- xmlNodePtr root;
++ xmlNodePtr root, parent;
+ xmlAttrPtr attr;
+ const htmlElemDesc * info;
+
+@@ -755,6 +755,7 @@ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ }
+
+ root = cur;
++ parent = cur->parent;
+ while (1) {
+ switch (cur->type) {
+ case XML_HTML_DOCUMENT_NODE:
+@@ -762,13 +763,25 @@ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ if (((xmlDocPtr) cur)->intSubset != NULL) {
+ htmlDtdDumpOutput(buf, (xmlDocPtr) cur, NULL);
+ }
+- if (cur->children != NULL) {
++ /* Always validate cur->parent when descending. */
++ if ((cur->parent == parent) && (cur->children != NULL)) {
++ parent = cur;
+ cur = cur->children;
+ continue;
+ }
+ break;
+
+ case XML_ELEMENT_NODE:
++ /*
++ * Some users like lxml are known to pass nodes with a corrupted
++ * tree structure. Fall back to a recursive call to handle this
++ * case.
++ */
++ if ((cur->parent != parent) && (cur->children != NULL)) {
++ htmlNodeDumpFormatOutput(buf, doc, cur, encoding, format);
++ break;
++ }
++
+ /*
+ * Get specific HTML info for that node.
+ */
+@@ -817,6 +830,7 @@ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ (cur->name != NULL) &&
+ (cur->name[0] != 'p')) /* p, pre, param */
+ xmlOutputBufferWriteString(buf, "\n");
++ parent = cur;
+ cur = cur->children;
+ continue;
+ }
+@@ -825,9 +839,9 @@ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ (info != NULL) && (!info->isinline)) {
+ if ((cur->next->type != HTML_TEXT_NODE) &&
+ (cur->next->type != HTML_ENTITY_REF_NODE) &&
+- (cur->parent != NULL) &&
+- (cur->parent->name != NULL) &&
+- (cur->parent->name[0] != 'p')) /* p, pre, param */
++ (parent != NULL) &&
++ (parent->name != NULL) &&
++ (parent->name[0] != 'p')) /* p, pre, param */
+ xmlOutputBufferWriteString(buf, "\n");
+ }
+
+@@ -842,9 +856,9 @@ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ break;
+ if (((cur->name == (const xmlChar *)xmlStringText) ||
+ (cur->name != (const xmlChar *)xmlStringTextNoenc)) &&
+- ((cur->parent == NULL) ||
+- ((xmlStrcasecmp(cur->parent->name, BAD_CAST "script")) &&
+- (xmlStrcasecmp(cur->parent->name, BAD_CAST "style"))))) {
++ ((parent == NULL) ||
++ ((xmlStrcasecmp(parent->name, BAD_CAST "script")) &&
++ (xmlStrcasecmp(parent->name, BAD_CAST "style"))))) {
+ xmlChar *buffer;
+
+ buffer = xmlEncodeEntitiesReentrant(doc, cur->content);
+@@ -902,13 +916,9 @@ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ break;
+ }
+
+- /*
+- * The parent should never be NULL here but we want to handle
+- * corrupted documents gracefully.
+- */
+- if (cur->parent == NULL)
+- return;
+- cur = cur->parent;
++ cur = parent;
++ /* cur->parent was validated when descending. */
++ parent = cur->parent;
+
+ if ((cur->type == XML_HTML_DOCUMENT_NODE) ||
+ (cur->type == XML_DOCUMENT_NODE)) {
+@@ -939,9 +949,9 @@ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ (cur->next != NULL)) {
+ if ((cur->next->type != HTML_TEXT_NODE) &&
+ (cur->next->type != HTML_ENTITY_REF_NODE) &&
+- (cur->parent != NULL) &&
+- (cur->parent->name != NULL) &&
+- (cur->parent->name[0] != 'p')) /* p, pre, param */
++ (parent != NULL) &&
++ (parent->name != NULL) &&
++ (parent->name[0] != 'p')) /* p, pre, param */
+ xmlOutputBufferWriteString(buf, "\n");
+ }
+ }
+diff --git a/xmlsave.c b/xmlsave.c
+--- a/xmlsave.c
++++ b/xmlsave.c
+@@ -847,7 +847,7 @@ htmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ static void
+ xmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ int format = ctxt->format;
+- xmlNodePtr tmp, root, unformattedNode = NULL;
++ xmlNodePtr tmp, root, unformattedNode = NULL, parent;
+ xmlAttrPtr attr;
+ xmlChar *start, *end;
+ xmlOutputBufferPtr buf;
+@@ -856,6 +856,7 @@ xmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ buf = ctxt->buf;
+
+ root = cur;
++ parent = cur->parent;
+ while (1) {
+ switch (cur->type) {
+ case XML_DOCUMENT_NODE:
+@@ -868,7 +869,9 @@ xmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ break;
+
+ case XML_DOCUMENT_FRAG_NODE:
+- if (cur->children != NULL) {
++ /* Always validate cur->parent when descending. */
++ if ((cur->parent == parent) && (cur->children != NULL)) {
++ parent = cur;
+ cur = cur->children;
+ continue;
+ }
+@@ -887,7 +890,18 @@ xmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ break;
+
+ case XML_ELEMENT_NODE:
+- if ((cur != root) && (ctxt->format == 1) && (xmlIndentTreeOutput))
++ /*
++ * Some users like lxml are known to pass nodes with a corrupted
++ * tree structure. Fall back to a recursive call to handle this
++ * case.
++ */
++ if ((cur->parent != parent) && (cur->children != NULL)) {
++ xmlNodeDumpOutputInternal(ctxt, cur);
++ break;
++ }
++
++ if ((ctxt->level > 0) && (ctxt->format == 1) &&
++ (xmlIndentTreeOutput))
+ xmlOutputBufferWrite(buf, ctxt->indent_size *
+ (ctxt->level > ctxt->indent_nr ?
+ ctxt->indent_nr : ctxt->level),
+@@ -942,6 +956,7 @@ xmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ xmlOutputBufferWrite(buf, 1, ">");
+ if (ctxt->format == 1) xmlOutputBufferWrite(buf, 1, "\n");
+ if (ctxt->level >= 0) ctxt->level++;
++ parent = cur;
+ cur = cur->children;
+ continue;
+ }
+@@ -1058,13 +1073,9 @@ xmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ break;
+ }
+
+- /*
+- * The parent should never be NULL here but we want to handle
+- * corrupted documents gracefully.
+- */
+- if (cur->parent == NULL)
+- return;
+- cur = cur->parent;
++ cur = parent;
++ /* cur->parent was validated when descending. */
++ parent = cur->parent;
+
+ if (cur->type == XML_ELEMENT_NODE) {
+ if (ctxt->level > 0) ctxt->level--;
+diff --git a/xmlsave.c b/xmlsave.c
+--- a/xmlsave.c
++++ b/xmlsave.c
+@@ -890,6 +890,13 @@ xmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ break;
+
+ case XML_ELEMENT_NODE:
++ if ((cur != root) && (ctxt->format == 1) &&
++ (xmlIndentTreeOutput))
++ xmlOutputBufferWrite(buf, ctxt->indent_size *
++ (ctxt->level > ctxt->indent_nr ?
++ ctxt->indent_nr : ctxt->level),
++ ctxt->indent);
++
+ /*
+ * Some users like lxml are known to pass nodes with a corrupted
+ * tree structure. Fall back to a recursive call to handle this
+@@ -900,13 +907,6 @@ xmlNodeDumpOutputInternal(xmlSaveCtxtPtr ctxt, xmlNodePtr cur) {
+ break;
+ }
+
+- if ((ctxt->level > 0) && (ctxt->format == 1) &&
+- (xmlIndentTreeOutput))
+- xmlOutputBufferWrite(buf, ctxt->indent_size *
+- (ctxt->level > ctxt->indent_nr ?
+- ctxt->indent_nr : ctxt->level),
+- ctxt->indent);
+-
+ xmlOutputBufferWrite(buf, 1, "<");
+ if ((cur->ns != NULL) && (cur->ns->prefix != NULL)) {
+ xmlOutputBufferWriteString(buf, (const char *)cur->ns->prefix);
diff --git a/gnu/packages/patches/libxml2-terminating-newline.patch b/gnu/packages/patches/libxml2-terminating-newline.patch
new file mode 100644
index 0000000000..3f5c88dd4e
--- /dev/null
+++ b/gnu/packages/patches/libxml2-terminating-newline.patch
@@ -0,0 +1,33 @@
+Fix a regression in 2.9.12 where serializing empty HTML documents would
+not add a terminating newline.
+
+ https://gitlab.gnome.org/GNOME/libxml2/-/issues/266
+
+Taken from upstream:
+
+ https://gitlab.gnome.org/GNOME/libxml2/-/commit/92d9ab4c28842a09ca2b76d3ff2f933e01b6cd6f
+
+diff --git a/HTMLtree.c b/HTMLtree.c
+--- a/HTMLtree.c
++++ b/HTMLtree.c
+@@ -763,11 +763,15 @@ htmlNodeDumpFormatOutput(xmlOutputBufferPtr buf, xmlDocPtr doc,
+ if (((xmlDocPtr) cur)->intSubset != NULL) {
+ htmlDtdDumpOutput(buf, (xmlDocPtr) cur, NULL);
+ }
+- /* Always validate cur->parent when descending. */
+- if ((cur->parent == parent) && (cur->children != NULL)) {
+- parent = cur;
+- cur = cur->children;
+- continue;
++ if (cur->children != NULL) {
++ /* Always validate cur->parent when descending. */
++ if (cur->parent == parent) {
++ parent = cur;
++ cur = cur->children;
++ continue;
++ }
++ } else {
++ xmlOutputBufferWriteString(buf, "\n");
+ }
+ break;
+
diff --git a/gnu/packages/patches/libxml2-xpath-recursion-limit.patch b/gnu/packages/patches/libxml2-xpath-recursion-limit.patch
new file mode 100644
index 0000000000..051196c635
--- /dev/null
+++ b/gnu/packages/patches/libxml2-xpath-recursion-limit.patch
@@ -0,0 +1,20 @@
+Fix recursion accounting in XPath expressions:
+
+ https://gitlab.gnome.org/GNOME/libxml2/-/issues/264
+
+Taken from upstream:
+
+ https://gitlab.gnome.org/GNOME/libxml2/-/commit/3e1aad4fe584747fd7d17cc7b2863a78e2d21a77
+
+diff --git a/xpath.c b/xpath.c
+--- a/xpath.c
++++ b/xpath.c
+@@ -10983,7 +10983,7 @@ xmlXPathCompileExpr(xmlXPathParserContextPtr ctxt, int sort) {
+ }
+
+ if (xpctxt != NULL)
+- xpctxt->depth -= 1;
++ xpctxt->depth -= 10;
+ }
+
+ /**
diff --git a/gnu/packages/patches/python-libxml2-python39-compat.patch b/gnu/packages/patches/python-libxml2-python39-compat.patch
deleted file mode 100644
index a707ea3434..0000000000
--- a/gnu/packages/patches/python-libxml2-python39-compat.patch
+++ /dev/null
@@ -1,94 +0,0 @@
-https://gitlab.gnome.org/GNOME/libxml2/-/commit/e4fb36841800038c289997432ca547c9bfef9db1.patch
-
-From e4fb36841800038c289997432ca547c9bfef9db1 Mon Sep 17 00:00:00 2001
-From: =?UTF-8?q?Miro=20Hron=C4=8Dok?= <miro@hroncok.cz>
-Date: Fri, 28 Feb 2020 12:48:14 +0100
-Subject: [PATCH] Parenthesize Py<type>_Check() in ifs
-
-In C, if expressions should be parenthesized.
-PyLong_Check, PyUnicode_Check etc. happened to expand to a parenthesized
-expression before, but that's not API to rely on.
-
-Since Python 3.9.0a4 it needs to be parenthesized explicitly.
-
-Fixes https://gitlab.gnome.org/GNOME/libxml2/issues/149
----
- python/libxml.c | 4 ++--
- python/types.c | 12 ++++++------
- 2 files changed, 8 insertions(+), 8 deletions(-)
-
-diff --git a/python/libxml.c b/python/libxml.c
-index bc676c4e..81e709f3 100644
---- a/python/libxml.c
-+++ b/python/libxml.c
-@@ -294,7 +294,7 @@ xmlPythonFileReadRaw (void * context, char * buffer, int len) {
- lenread = PyBytes_Size(ret);
- data = PyBytes_AsString(ret);
- #ifdef PyUnicode_Check
-- } else if PyUnicode_Check (ret) {
-+ } else if (PyUnicode_Check (ret)) {
- #if PY_VERSION_HEX >= 0x03030000
- Py_ssize_t size;
- const char *tmp;
-@@ -359,7 +359,7 @@ xmlPythonFileRead (void * context, char * buffer, int len) {
- lenread = PyBytes_Size(ret);
- data = PyBytes_AsString(ret);
- #ifdef PyUnicode_Check
-- } else if PyUnicode_Check (ret) {
-+ } else if (PyUnicode_Check (ret)) {
- #if PY_VERSION_HEX >= 0x03030000
- Py_ssize_t size;
- const char *tmp;
-diff --git a/python/types.c b/python/types.c
-index c2bafeb1..ed284ec7 100644
---- a/python/types.c
-+++ b/python/types.c
-@@ -602,16 +602,16 @@ libxml_xmlXPathObjectPtrConvert(PyObject *obj)
- if (obj == NULL) {
- return (NULL);
- }
-- if PyFloat_Check (obj) {
-+ if (PyFloat_Check (obj)) {
- ret = xmlXPathNewFloat((double) PyFloat_AS_DOUBLE(obj));
-- } else if PyLong_Check(obj) {
-+ } else if (PyLong_Check(obj)) {
- #ifdef PyLong_AS_LONG
- ret = xmlXPathNewFloat((double) PyLong_AS_LONG(obj));
- #else
- ret = xmlXPathNewFloat((double) PyInt_AS_LONG(obj));
- #endif
- #ifdef PyBool_Check
-- } else if PyBool_Check (obj) {
-+ } else if (PyBool_Check (obj)) {
-
- if (obj == Py_True) {
- ret = xmlXPathNewBoolean(1);
-@@ -620,14 +620,14 @@ libxml_xmlXPathObjectPtrConvert(PyObject *obj)
- ret = xmlXPathNewBoolean(0);
- }
- #endif
-- } else if PyBytes_Check (obj) {
-+ } else if (PyBytes_Check (obj)) {
- xmlChar *str;
-
- str = xmlStrndup((const xmlChar *) PyBytes_AS_STRING(obj),
- PyBytes_GET_SIZE(obj));
- ret = xmlXPathWrapString(str);
- #ifdef PyUnicode_Check
-- } else if PyUnicode_Check (obj) {
-+ } else if (PyUnicode_Check (obj)) {
- #if PY_VERSION_HEX >= 0x03030000
- xmlChar *str;
- const char *tmp;
-@@ -650,7 +650,7 @@ libxml_xmlXPathObjectPtrConvert(PyObject *obj)
- ret = xmlXPathWrapString(str);
- #endif
- #endif
-- } else if PyList_Check (obj) {
-+ } else if (PyList_Check (obj)) {
- int i;
- PyObject *node;
- xmlNodePtr cur;
---
-GitLab
-
diff --git a/gnu/packages/xml.scm b/gnu/packages/xml.scm
index f07f9b91b1..092d238626 100644
--- a/gnu/packages/xml.scm
+++ b/gnu/packages/xml.scm
@@ -184,14 +184,17 @@ hierarchical form with variable field lengths.")
(define-public libxml2
(package
(name "libxml2")
- (version "2.9.10")
+ (version "2.9.12")
(source (origin
(method url-fetch)
(uri (string-append "ftp://xmlsoft.org/libxml2/libxml2-"
version ".tar.gz"))
(sha256
(base32
- "07xynh8hcxb2yb1fs051xrgszjvj37wnxvxgsj10rzmqzy9y3zma"))))
+ "14hxwzmf5xqppx77z7i0ni9lpzg1a84dqpf8j8l1fvy570g6imn8"))
+ (patches (search-patches "libxml2-parent-pointers.patch"
+ "libxml2-terminating-newline.patch"
+ "libxml2-xpath-recursion-limit.patch"))))
(build-system gnu-build-system)
(outputs '("out" "static" "doc"))
(arguments
@@ -217,8 +220,7 @@ hierarchical form with variable field lengths.")
;; file such that Libtool does the right thing when both
;; the shared and static variants are available.
(substitute* (string-append src "/lib/libxml2.la")
- (("^old_library='libxml2.a'") "old_library=''"))
- #t))))))
+ (("^old_library='libxml2.a'") "old_library=''"))))))))
(home-page "http://www.xmlsoft.org/")
(synopsis "C parser for XML")
(inputs `(("xz" ,xz)))
@@ -374,8 +376,7 @@ It uses libxml2 to access the XML files.")
(source (origin
(inherit (package-source libxml2))
(patches
- (append (search-patches "python-libxml2-python39-compat.patch"
- "python-libxml2-utf8.patch")
+ (append (search-patches "python-libxml2-utf8.patch")
(origin-patches (package-source libxml2))))))
(build-system python-build-system)
(outputs '("out"))
@@ -397,8 +398,7 @@ It uses libxml2 to access the XML files.")
(format #f "ROOT = r'~a'" libxml2))
;; For 'iconv.h'.
(("/opt/include")
- (string-append glibc "/include"))))
- #t)))))
+ (string-append glibc "/include")))))))))
(inputs `(("libxml2" ,libxml2)))
(synopsis "Python bindings for the libxml2 library")))
@@ -2603,7 +2603,14 @@ because lxml.etree already has its own implementation of XPath 1.0.")
(method url-fetch)
(uri (pypi-uri "lxml" version))
(sha256
- (base32 "0s14r1w2x9sdlcsw8mxiqgw4rz5zs5lpqpxrfyn4a1mkndqqbdrr"))))
+ (base32 "0s14r1w2x9sdlcsw8mxiqgw4rz5zs5lpqpxrfyn4a1mkndqqbdrr"))
+ ;; Adapt a test to libxml2 2.9.12, taken from this commit:
+ ;; https://github.com/lxml/lxml/commit/852ed1092bd80b6b9a51db24371047e
+ (modules '((guix build utils)))
+ (snippet
+ '(substitute* "src/lxml/tests/test_etree.py"
+ (("self\\.assertEqual\\(\\{'hha': None\\}, el\\.nsmap\\)")
+ "self.assertEqual({}, el.nsmap)")))))
(build-system python-build-system)
(arguments
`(#:phases (modify-phases %standard-phases
generated by cgit