Using libxml2. Can someone explain why this point is giving me 8.3V? -- Detecting C compile features - done -- Looking for newlocale - found from /usr/include/libxml2/libxml/xmlmemory.h:218, I wasn't see anyway to override this false positive libxml1 check, so a hack of a workaround you can use is to patch out that branch of the configure script. Making statements based on opinion; back them up with references or personal experience. Connect and share knowledge within a single location that is structured and easy to search. How can I control PNP and NPN transistors together from one pin? By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. LAPACK: /home/kkarius/anaconda3/lib/R/lib/libRlapack.so, locale: * checking for gzopen in -lz. Alternatively, you may set the environment variables LIBXML_CFLAGS and LIBXML_LIBS to avoid the need to call pkg-config. -- Doxygen not found, API documentation won't be generated Browse other questions tagged, Where developers & technologists share private knowledge with coworkers, Reach developers & technologists worldwide, for libxml++2.6 sudo apt-get install libxml++2.6-dev. privacy statement. This should also work as I didn't have brew: So, you already have libxml2 installed with brew. It only takes a minute to sign up. from /home/patricaholden/williamson/testbuild/Pro3-Linux/packages/libiio/xml.c:23: -- Check for working C compiler: /usr/bin/cc Well occasionally send you account related emails. Why can pkg-config not find gsettings-desktop-schemas? How can I control PNP and NPN transistors together from one pin? On whose turn does the fright from a terror dive end? configure: error: "libxml not found" Making 'packages.html' done What were the most popular text editors for MS-DOS in the 1980s? Located parser file -I/home/kkarius/anaconda3/include/libxml2 -I/home/kkarius/anaconda3/include/parser.h from /usr/include/libxml2/libxml/xmlmemory.h:218, Would you ever say "eat pig" instead of "eat pork"? I am also running into the failure when trying to cross-compile libraries. For trying out wordpress 3.8 installation, i had to upgrade my php installation from 5.1.6 to 5.2.4 or later version. force = TRUE, trying URL 'https://cran.rstudio.com/src/contrib/XML_3.98-1.9.tar.gz' checking for pkg-config /usr/bin/pkg-config Have a question about this project? make: *** [all] Error 2. sorry for going dark on this one, I realized it was probably a problem with cmake or some other component. But i having problem with second command $ ./configure. checking whether gcc accepts -g yes Malicious files should be detected reliably now okay, I missed that I need to have it installed, now it works! -- Performing Test HAS_PIPE2 - Success How to automatically extend windows virtual disk size [Openstack], No such file or directory c++ Error [CentOS], How to configure Open vSwitch bridge for OpenStack, Too many connections for neutron-db-manage [MySQL], How to manually install higher version of PIP for Python v2.7, [CentOS 7]: Yum install python-pip | No package python-pip available, [OpenStack noVNC]: Code 400, message Client must support binary or base64 protocol [Solved], [CentOS Stream 8]: Error: Unknown repo epel [Solved]. https://nick-black.com/bugzilla/show_bug.cgi?id=543 we had a bug on this uninformative error. I'm going to close this - as I think the cross problem is in a new thread. Not the answer you're looking for? Here is the full error message : configuring libxml-libxml-perl (2.0108+dfsg-1ubuntu0.1) . checking whether the C compiler works yes Futuristic/dystopian short story about a man living in a hive society trying to meet his dying mother. https://download.gnome.org/sources/libxml2/2.11/libxml2-2.11.0.tar.xz (2.50M) devtools::install("./XML", During the ./configure it will produce the following error: However I do have libxslt installed, e.g. sudo apt-get install libxml2-dev I'm unable to determine which is the right version (libxml or libxml2) for 14.04 but you'll want to make sure you have the -dev version installed. i.e. [ 26%] Building C object CMakeFiles/iio.dir/scan.c.o thank you so much. Checking for 1.8: /home/***/anaconda3/include/libxml2/ It doesn't mention the names "LIBXML_CFLAGS" and "LIBXML_LIBS" as far as I can see. * Well occasionally send you account related emails. -- Check size of struct usb_functionfs_descs_head_v2 checking how to run the C preprocessor gcc -E headers, it was still possible to declare them manually. What is this brick with a round back and a stud on the side used for? Please check your libxml2 installation. ^ For Microsoft Windows 64-bit Emacs, the file nt/INSTALL.w64 says this: Run msys2_shell.bat in your MSYS2 directory and you will see a BASH window opened. As the error message indicates, you need to specify the libxml2 path using PKG_CONFIG_PATH. It will still work most of the time, but might not suffice when the newer version of btrfs-tools has added new dependencies (like back in the day when mainline btrfs already supported some newer compression algorithm, but Debian's version . Looking for job perks? Make sure it is in your PATH or set the PKG_CONFIG environment variable to the full path to pkg-config. You can check what development packages are available for a particular library using the apt-cache search engine e.g. Don't subscribeAllReplies to my comments I suspect that libusb is also being found in /usr/lib. If you have specified LIBXML_INCDIR, make certain to also How a top-ranked engineering school reimagined CS curriculum (Ep. Can someone explain why this point is giving me 8.3V? USE_XML2 = yes Are there any canonical examples of the Prime Directive being broken that aren't shown on screen? git clone https://github.com/analogdevicesinc/libiio.git * installing *source* package XML https://webkaru.net/linux/configure-error-xml2-config-found-please-check-libxml2-installation/, https://stackoverflow.com/questions/45775877/configure-error-please-reinstall-the-libzip-distribution. Making statements based on opinion; back them up with references or personal experience. Could you please promote your comment as an answer so I can mark it as such? -- Looking for strerror_r of the following names: Add the installation prefix of "Python" to CMAKE_PREFIX_PATH or set no configure: error: "libxml not found" ERROR: configuration failed for package 'XML' [ 11%] Building C object CMakeFiles/iio.dir/context.c.o it will tell you the full paths to all the files in that package. I started with a fresh copy of the LibIIO repo and re-ran cmake. cmake --sysroot=${PWD}/../../../ubuntu-18.04.2-minimal-armhf-2019-02-16 ../ ), I had this issue with PHP 7.4 build from source on Ubuntu 16.04 which I fixed by using the same way for OSX suggested above + installing dev package for libxml2-dev. By not providing "FindPython.cmake" in CMAKE_MODULE_PATH this project has Ah, so you're using Anaconda's R distribution. [ 23%] Building C object CMakeFiles/iio.dir/utilities.c.o ^ Can I connect multiple USB 2.0 females to a MEAN WELL 5V 10A power supply? If I'm reading this right, the linker cannot find the lib xml2. By clicking Accept all cookies, you agree Stack Exchange can store cookies on your device and disclose information in accordance with our Cookie Policy. By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. provides a separate development package or SDK, be sure it has been Thanks for contributing an answer to Stack Overflow! checking for xmlParseFile in -lxml no Refactoring has begun on some buffering and encoding code with the goal of Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C, attached base packages: What differentiates living as mere roommates from living in a marriage-like relationship? Downloaded the latest stable version of php ie, 5.5.7 and started to compile. It seems that R is picking up the libxml2 installation from Anaconda. -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) Warning message: To learn more, see our tips on writing great answers. Working PATH (for me): /usr/local/sbin:/usr/local/bin:/usr/bin:/var/lib/flatpak/exports/bin:/usr/lib/jvm/default/bin:/usr/bin/site_perl:/usr/bin/vendor_perl:/usr/bin/core_perl. R -q --vanilla < When a gnoll vampire assumes its hyena form, do its HP change? Can I connect multiple USB 2.0 females to a MEAN WELL 5V 10A power supply? What is scrcpy OTG mode and how does it work? It is possible though that large pthread library not found; support for threads will be disabled. Because configure it self is autogenerated from configure.ac using autotools, one patches configure.ac and can then run autoreconf. Why in the Sierpiski Triangle is this set being used as the example for the OSC and not a more "natural"? make[1]: *** [CMakeFiles/iio.dir/all] Error 2 * edition of libxml [ 30%] Building C object CMakeFiles/iio.dir/xml.c.o Internal Here are my steps and the results. To my unluck, i ran into following errors: The quick solution to the above problem is you need to install libxml2-devel package. make all, [ 3%] Building C object CMakeFiles/iio.dir/backend.c.o ** package XML successfully unpacked and MD5 sums checked [ 25%] Building C object CMakeFiles/iio.dir/local.c.o BLAS: /home/kkarius/anaconda3/lib/R/lib/libRblas.so CMake Warning at bindings/python/CMakeLists.txt:4 (find_package): What are the advantages of running a power tool on 240 V vs 120 V? [ 42%] Building C object CMakeFiles/iio.dir/xml.c.o Ubuntu and the circle of friends logo are trade marks of Canonical Limited and are used under licence. Start here for a quick overview of the site, Detailed answers to any questions you might have, Discuss the workings and policies of this site. Policy. -- Found Git: /usr/bin/git (found version "2.17.1") long story short: if "/bin" is in your PATH, cmake doesn't work correctly. To subscribe to this RSS feed, copy and paste this URL into your RSS reader. Using Bioconductor 3.5 (BiocInstaller 1.26.1), R 3.4.1 (2017-06-30). Can the game be left in an invalid state if all state-based actions are replaced? cmake --sysroot=${PWD}/../../ubuntu-18.04.2-minimal-armhf-2019-02-16 ../ -- Performing Test HAS_WPEDANTIC What did help was to install libxml through conda using. As you can see, libxml2 is being found in /usr/lib and not in the sysroot defined. DESeq2 . I agree, this works for me. [root@catest php-5.5.7]# yum install libxml2-devel To subscribe to this RSS feed, copy and paste this URL into your RSS reader. Sign up for a free GitHub account to open an issue and contact its maintainers and the community. Thanks for pointing this out as I've kind of been stuck on this for a bit trying to do it from CMake within my project. See the pkg-config man page for more details. to your account, phpenv Sign up for a free GitHub account to open an issue and contact its maintainers and the community. The output is this: > source("https://bioconductor.org/biocLite.R") For a list of important open Stack Exchange network consists of 181 Q&A communities including Stack Overflow, the largest, most trusted online community for developers to learn, share their knowledge, and build their careers. Several cases of quadratic behavior in the XML push parser have been fixed. 565), Improving the copy in the close modal and post notices - 2023 edition, New blog post from our CEO Prashanth: Community is the future of AI, Ubuntu 23.04 (Lunar Lobster) is now released and is no longer off-topic, Announcement: AI-generated content is now permanently banned on Ask Ubuntu, Found 'solutions' to "cannot find -lcrypto" are not working for me, Installation of i386 Deb(Hangul 2008) into AMD64 architecture; dpkg/library error, Testing CUDA in Ubuntu 16.04: /usr/bin/ld: cannot find -lnvcuvid. -- Found BISON: /usr/bin/bison (found version "3.0.4") Package libxml2.0 was not found in the pkg-config search path. English version of Russian proverb "The hedgehogs got pricked, cried, but continued to eat the cactus", How to convert a sequence of integers into a monomial. -- Looking for libusb_get_version - found That will install the build dependencies for the btrfs-tools version in your package repository, rather than for the newer version you're trying to build. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. I have checked the pathname for sysroot and it is most certainly correct. -- Looking for pthread_setname_np - found By clicking Accept all cookies, you agree Stack Exchange can store cookies on your device and disclose information in accordance with our Cookie Policy. Thanks for trying omphalos! args = "--configure-args='--with-libxml2'") checking whether gcc accepts -g yes CMakeFiles/iio.dir/build.make:302: recipe for target 'CMakeFiles/iio.dir/xml.c.o' failed Problems install R XML package on CentOS 7, Traffic: 580 users visited in the last hour, https://cran.rstudio.com/src/contrib/XML_3.98-1.9.tar.gz', https://cloud.r-project.org/src/contrib/XML_3.98-1.9.tar.gz, User Agreement and Privacy Easy way of installing it is using yum by issuing the following command on your CentOS/Fedora/RHEL Linux distributions. Trying to install the XML package as follows I get the error configure: error: "libxml not found". from /usr/include/libxml2/libxml/globals.h:18, sequential (one-line) endnotes in plain tex/optex. no checking for xmlParseFile in -lxml2. Find centralized, trusted content and collaborate around the technologies you use most. /usr/local/Cellar/libxml2/2.9.3/lib/pkgconfig and /usr/local/Library/ENV/pkgconfig/. ~. [ 30%] Building C object CMakeFiles/iio.dir/sort.c.o I had libxml2 installed but not libxml2-devel. Thanks for contributing an answer to Ask Ubuntu! -- Looking for stddef.h - found Here is the diff in case someone else has the same problem, what didn't work, but I also tried: building and installing AUR version libxml2-git as well as installing libxml2-2.9.9-2. The quick solution to the above problem is you need to install libxml2-devel package. this is the output if make all after cloning the repo and cmake ./: The text was updated successfully, but these errors were encountered: Well, did you install the development files of libxml2? By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. Try installing: deb: libxml2-dev (Debian, Ubuntu, etc) rpm: libxml2-devel (Fedora, CentOS, RHEL) csw: libxml2_dev (Solaris) If libxml-2.0 is already installed, check that 'pkg-config' is in your PATH and PKG_CONFIG_PATH contains a libxml-2.0.pc file. compilation terminated. Literature about the category of finitary monads. #include Why don'y you use the conda package for CRAN's XML (called r-xml)? -- Looking for newlocale Looking for job perks? hi, when i configure dictconvert in dictconvert folder with ./configure command, then i get an error, it as follows: checking for libxml - version >= 2.5.0. no *** The xml2-config script installed by LIBXML could not be found *** If libxml was installed in PREFIX, make sure PREFIX/bin is in *** your path, or set the XML2_CONFIG environment variable to the *** full path to xml2-config. Thanks! Using libxml2. To learn more, see our tips on writing great answers. R version 3.4.1 (2017-06-30) issues see https://gitlab.gnome.org/GNOME/libxml2/-/issues/507, Powered by Discourse, best viewed with JavaScript enabled, https://download.gnome.org/sources/libxml2/2.11/libxml2-2.11.0.tar.xz, https://gitlab.gnome.org/GNOME/libxml2/-/issues/507. https://webkaru.net/linux/configure-error-xml2-config-found-please-check-libxml2-installation/. no >>configure: erroe: *** libxml >= 1. . compilation terminated. Already on GitHub? Thanks for contributing an answer to Stack Overflow! "Python_DIR" to a directory containing one of the above files. Well occasionally send you account related emails. installation of package XML had non-zero exit status, > sessionInfo() I made sure xml2 and libxml2 are installed (via sudo apt-get install) but that's not enough. What are the advantages of running a power tool on 240 V vs 120 V? What is this brick with a round back and a stud on the side used for? So you have to specify the location of libxml2 when you run ./configure, just as brew and libvisio tell you to: (The paths on your system may vary, so do check! One other thing, changing the PATH produces following error with CMake: CMake Warning at CMakeLists.txt:289 (message): >>Still the configure script stops with this erroe: >>checking for xmlSAXUserParseFile. Why typically people don't use biases in attention mechanism? The pasted message is from Brew. -- Performing Test WITH_NETWORK_EVENTFD Located parser file /home/***/anaconda3/include/libxml2//parser.h So I'm not sure if this correct behaviour, since the libxml & libusb are both in the sysroot specified in the cmake line. -- Looking for libusb-1.0 : Found Worked fine on my manjaro machine with just the base-devel group installed. While these symbols were never declared in public Not the answer you're looking for? By clicking Sign up for GitHub, you agree to our terms of service and To reproduce your problem I installed Anaconda3 4.4.0 on RedHat 7.4, then: Use of this site constitutes acceptance of our User Agreement and Privacy : The resulting config.log only mentions configure:6235: error: Cannot find xsltproc. 0.5 on a SuSE 7.0 distribution. Home Linux PHP configure error: xml2-config not found. Yes, the *-dev packages don't exist in Arch Linux, so I can't forget it. I believe that libxml2 is an optional package that you can install along with Emacs. Fix use-after-free in xmlParseContentInternal() (David Kilzer), xmllint: Fix use-after-free with --maxmem, parser: Fix OOB read when formatting error message, entities: Rework entity amplification checks, parser: Fix regression in xmlParserNodeInfo accounting, Fix memory errors in code handling malloc failures, xmlParseStartTag2() contains typo when checking for default definitions for, error: Make sure that error messages are valid UTF-8, xmllint: Validate --maxmem integer option, xmlValidatePopElement() can return invalid value (-1) (David Kilzer), parser: Rework EBCDIC code page detection, parser: Limit name length in xmlParseEncName, parser: Rework shrinking of input buffers, html: Rely on CUR_CHAR to grow the input buffer, parser: Rely on CUR_CHAR/NEXT to grow the input buffer, valid: Make xmlValidateElement non-recursive, html: Fix quadratic behavior in htmlParseTryOrFinish, xmllint: Fix memory leak with --pattern --stream, parser: Stop calling xmlParserInputShrink, xinclude: Fix quadratic behavior in xmlXIncludeLoadTxt, xinclude: Abort immediately if max depth was exceeded, parser: Lower entity nesting limit with XML_PARSE_HUGE, parser: Dont increase depth twice when parsing internal entities, parser: Improve detection of entity loops, parser: Only report a single entity error, libxml.h: Remove dubious definition of LIBXML_STATIC, encoding: Remove unused variable xmlDefaultCharEncodingHandler, parser: Merge misc, prolog and epilog cases in push parser, parser: Fix consumed accounting when switching encodings, html: Fix check for end of comment in push parser, parser: Fix push parser with 1-3 byte initial chunk, parser: Rewrite push parser boundary checks, reader: Switch to xmlParserInputBufferCreateMem, html: Dont escape ASCII chars in href attributes, parser: Dont call xmlSHRINK from push parser, parser: Ignore cdata argument in xmlParseCharData, parser: Rework push parser parser progress checks, io: Fix a few integer overflows in I/O statistics, io: Rework xmlParserInputBufferGrow with encodings, io: Check for memory buffer early in xmlParserInputGrow, parser: Fix error message in xmlParseCommentComplex, Bypass proxy in nanoHTTP for hosts in no_proxy (Markus Jrg), schemas: Fix infinite loop in xmlSchemaCheckElemSubstGroup, xinclude: Remove inefficient refcounting scheme, xmllint: Improve handling of empty XPath node sets, parser: Fix potential memory leak in xmlParseAttValueInternal, error: Dont use initGenericErrorDefaultFunc, xpath: Lower XPath recursion limit on Windows, Make xmlNewSAXParserCtx take a const sax handler, Remove internal macros from parserInternals.h, Move some HTML functions to correct header file, xmllint: Stop calling xmlSAXDefaultVersion, Introduce xmlNewSAXParserCtxt and htmlNewSAXParserCtxt, Dont mess with parser options in htmlParseDocument, Remove useless call to htmlDefaultSAXHandlerInit, Remove htmlDefaultSAXHandler from non-SAX1 build, Dont initialize SAX handler in htmlReadMemory, Fix htmlReadMemory mixing up XML and HTML functions, Dont use default SAX handler to report unrelated errors, Create stream with buffer in xmlNewStringInputStream, xzlib: Fix implicit sign change in xz_open, parser: Simplify calculation of available buffer space, parser: Use size_t when subtracting input buffer pointers, parser: Check for integer overflow when updating checkIndex, xpath: Fix harmless integer overflow in xmlXPathTranslateFunction, regexp: Add sanity check in xmlRegCalloc2, encoding: Cast toupper argument to unsigned char, buf: Fix return value of xmlBufGetInputBase, parser: Remove useless ent->etype test in xmlParseReference, parser: Remove useless ent->children tests in xmlParseReference, xmlexports.h: Disable docs for internal macro XMLPUBLIC, parser: Simplify xmlParseConditionalSections, io: Rearrange code in xmlSwitchInputEncodingInt, warnings: Fix -Wstrict-prototypes warning, warnings: Remove set-but-unused variables, Fix unused variable warning in python/types.c, Dont use sizeof(xmlChar) or sizeof(char), parser: Deprecate more internal functions, parser: Deprecate some parser input functions, parser: Deprecate xmlString*DecodeEntities, threads: Deprecate some internal functions, Generate deprecation warnings for old SAX API, Mark more functions setting globals as deprecated, autoconf: Warn about outdated C compilers, catalog.c: Silence a cast warning on VS 2022 (Luk Tyrychtr), xstc/fixup-tests.py: port to Python 3 (Ross Burton), xstc/fixup-tests.py: unify whitespace (Ross Burton), Remove hacky heuristic from b2dc5675 (Alex Richardson), Avoid creating an out-of-bounds pointer by rewriting a check, Correctly relocate internal pointers after realloc() (Alex Richardson), Visual Studio builds: Allow silencing deprecation warnings (Chun-wei Fan), Visual Studio: Define XML_DEPRECATED (Chun-wei Fan), sources: Silence C4013 warnings on Visual Studio (Chun-wei Fan), python/setup.py.in: Improve Windows import patching (Chun-wei Fan), Fix Windows compiler warnings in python/types.c, Fix libxml_PyFileGet with stdout on macOS, xmlexports.h: Remove LIBXML_FASTCALL optimization, Remove XMLCALL and XMLCDECL macros from public headers, Remove RPM build, Makefile.tests, README.tests, libxml.m4: deprecate AM_PATH_XML2, wrap PKG_CHECK_MODULES instead, libxml.m4: fix -Wstrict-prototypes (Sam James), cmake: Build static library with -DLIBXML_STATIC, autotools: Dont use version script on Windows, autotools: Only add network libraries if HTTP/FTP enabled, python: Dont output missing generators during build, Remove HAVE_WIN32_THREADS configuration flag, Use AM_CFLAGS and AM_LDFLAGS consistently, configure.ac: Remove checks for unused programs, Consolidate simple API modules in configure.ac, Fix dependency resolution in configure.ac, Cleanup distribution settings in Makefile.am, testchar: Add test for memory pull parser with encoding, fuzz: Also test init function of URI fuzzer, gitlab-ci: Enable all integer sanitizers, fuzz: Support variable integer sizes in fuzz data, fuzz: Fix duplicate detection in fuzzEntityRecorder, fuzz: Set filename in xmlFuzzEntityLoader, python/tests/reader2: use absolute paths everywhere (Ross Burton), python/tests/reader2: always exit(1) if a test fails (Ross Burton), testModule: exit if the module cant be opened (Ross Burton), CI: disable modules in gcc:static build (Ross Burton), tests: Check that xmlInitParser doesnt allocate memory, tests: Fix use-after-free in Python tests, gitlab-ci: Make Test-Msvc exit if ctest fails, gitlab-ci: Treat compiler warnings as errors on MSVC, test: Add test for push parser boundaries, gitlab-ci: Upgrade image to Ubuntu 22.10, reenable MSan, xinclude: Dont create result doc for test with errors, gitlab-ci: Allow cast-align warnings from clang, gitlab-ci: Move MSVC test to separate script, gitlab-ci: Consolidate CMake test scripts, gitlab-ci: Only install MinGW autotools if needed, gitlab-ci: Only install cmake MinGW package if needed, Disable fuzzer tests if glob.h wasnt found, html: Fix htmlInitAutoClose documentation, doc: Mention new location of XML catalog as breaking change, doc: Mention potentially breaking changes in NEWS, doc: Remove xmlDllMain from documentation and version script, doc: Document xmllint --nodict and --pedantic, Support comments for global variables in documentation, Dont index anything in DOC_DISABLE sections.

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