no checking for xmlParseFile in -lxml. The output is this: > source("https://bioconductor.org/biocLite.R") You can also subscribe without commenting. If "Python" You are trying to use a version 2. -- Looking for libusb_get_version Unexpected uint64 behaviour 0xFFFF'FFFF'FFFF'FFFF - 1 = 0? 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. @pcercuei correct me if I'm wrong here, but we don't really do anything special with libxml2 in cmake but rely on find_package. Learn more about Stack Overflow the company, and our products. Trying to install the XML package as follows I get the error configure: error: "libxml not found". Package libxml2.0 was not found in the pkg-config search path. I believe that libxml2 is an optional package that you can install along with Emacs. Making statements based on opinion; back them up with references or personal experience. > biocLite("XML") Connect and share knowledge within a single location that is structured and easy to search. libxml2-dev cmake --sysroot=${PWD}/../../ubuntu-18.04.2-minimal-armhf-2019-02-16 ../ checking whether we are cross compiling no checking whether we are using the GNU C compiler yes [ 42%] Building C object CMakeFiles/iio.dir/xml.c.o Interpreting non-statistically significant results: Do we have "no evidence" or "insufficient evidence" to reject the null? no checking for xmlParseFile in -lxml2. 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. So the other option left was to install from source. make: *** [all] Error 2. sorry for going dark on this one, I realized it was probably a problem with cmake or some other component. long story short: if "/bin" is in your PATH, cmake doesn't work correctly. it will tell you the full paths to all the files in that package. I think there is a problem with the environment variables when you install R through conda. How about saving the world? @steeldriver Thanks - that answers my original question. CMake did not find one. checking for suffix of object files o If you have specified LIBXML_INCDIR, make certain to also "Signpost" puzzle from Tatham's collection. What are the advantages of running a power tool on 240 V vs 120 V? By clicking Accept all cookies, you agree Stack Exchange can store cookies on your device and disclose information in accordance with our Cookie Policy. I had the same error but libxml2-dev was already installed so that didn't help. Embedded hyperlinks in a thesis or research paper. So I'm not sure if this correct behaviour, since the libxml & libusb are both in the sysroot specified in the cmake line. How a top-ranked engineering school reimagined CS curriculum (Ep. ~. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. checking for xmlParseFile in -lxml2 no /tmp/RtmpY66UhU/downloaded_packages Sign up for a free GitHub account to open an issue and contact its maintainers and the community. You can get all the above info by running: brew info libxml2. Thanks! Already on GitHub? https://webkaru.net/linux/configure-error-xml2-config-found-please-check-libxml2-installation/. memory pressure. How about saving the world? rev2023.4.21.43403. It seems that R is picking up the libxml2 installation from Anaconda. I run CentOS and have installed the libxml-devel package via yum which is encouraged online. -- Found BISON: /usr/bin/bison (found version "3.0.4") link errors with --no-undefined-version. Notify me of followup comments via e-mail. Sign up for a free GitHub account to open an issue and contact its maintainers and the community. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. Is there a generic term for these trajectories? Ubuntu and the circle of friends logo are trade marks of Canonical Limited and are used under licence. In file included from /usr/include/libxml2/libxml/parser.h:810:0, Let me know if you have any further problems. So what include directory does CMake uses for libxml2? checking whether gcc accepts -g yes USE_XML2 = yes cd build : % xsltproc --version Using libxml . Yes, the *-dev packages don't exist in Arch Linux, so I can't forget it. -- Check size of struct usb_functionfs_descs_head_v2 checking for gcc gcc By clicking Sign up for GitHub, you agree to our terms of service and [ 25%] Building C object CMakeFiles/iio.dir/local.c.o cd build libraries make Share Improve this question Follow Find centralized, trusted content and collaborate around the technologies you use most. Does a password policy with a restriction of repeated characters increase security? I've corrected -libs to --libs (initial error from copying and pasting via MS Word). Have a question about this project? The problem in this case is the configure script incorrectly judges you to be using libxml 1 from parsing the include directory. from /usr/include/libxml2/libxml/globals.h:18, How do I stop the Flickering on Mode 13h? which indicates to me that /usr/lib/x86_64-linux-gnu/pkgconfig is already in the default path for pkg-config. I installed R using apt-get. By clicking Sign up for GitHub, you agree to our terms of service and -- Looking for newlocale - found checking for gcc gcc What does "up to" mean in "is first up to launch"? * edition of libxml make[2]: *** [CMakeFiles/iio.dir/xml.c.o] Error 1 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 . What is scrcpy OTG mode and how does it work? Can I connect multiple USB 2.0 females to a MEAN WELL 5V 10A power supply? Please check your libxml2 installation. Asking for help, clarification, or responding to other answers. The problem is it's looking for libxml-2.0, not libxml2. it should tell you what environment variables you need to set in order to find libxml2 So, armed with these last two pieces of info, you should be able . Why do men's bikes have high bars where you can hit your testicles while women's bikes have the bar much lower? You signed in with another tab or window. -- Found Git: /usr/bin/git (found version "2.17.1") * installing *source* package XML checking whether the C compiler works yes Did the drapes in old theatres actually say "ASBESTOS" on them? git clone https://github.com/analogdevicesinc/libiio.git conda install -c r r-xml. [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C I really don't get why it's not building on my systems, my workaround now is to set it to REQUIRED in the CMakeList.txt file, but I honestly have no idea what exactly that changes, it just works now. CMake Warning at bindings/python/CMakeLists.txt:4 (find_package): Content Discovery initiative April 13 update: Related questions using a Review our technical responses for the 2023 Developer Survey, Error installing R 2.13.0 packages (caret) on Ubuntu 10.04, Unable to compile xps after installing ROOT, missing libraries, RCDK package installation fails in R studio. Making statements based on opinion; back them up with references or personal experience. To subscribe to this RSS feed, copy and paste this URL into your RSS reader. Located parser file /home/***/anaconda3/include/libxml2//parser.h 0.5 on a SuSE 7.0 distribution. Refactoring has begun on some buffering and encoding code with the goal of "Signpost" puzzle from Tatham's collection. [1] stats graphics grDevices utils datasets methods base, other attached packages: Generally to troubleshoot a configure problem, you should download the package tarball, run the installation, and inspect the config.log file. specify an appropriate LIBXML_LIBDIR if the libxml2 library is not in the default What did help was to install libxml through conda using. Share Improve this answer Follow answered Mar 14, 2019 at 16:39 stdunbar 15.8k 10 35 50 It is possible though that large This doesn't work for me. -- Performing Test HAS_O_TMPFILE - Success libxml-2.0.pc : Suggest a copy or a link to /usr/lib/pkgconfig/, https://wiki.documentfoundation.org/DLP/Libraries/libvisio. [ 16%] Building C object CMakeFiles/iio.dir/utilities.c.o sha256sum: b1a2fca3f7722d6c35a4f24974a1b5800e4d84ec5cb756bc61ef2b8c75a19e36. Looking for job perks? To my unluck, i ran into following errors: The quick solution to the above problem is you need to install libxml2-devel package. In install.packages(pkgs = doing, lib = lib, ) : As you can see, libxml2 is being found in /usr/lib and not in the sysroot defined. from /home/patricaholden/williamson/testbuild/Pro3-Linux/packages/libiio/xml.c:23: -- Looking for stdint.h - found Correct name of the libxml2 configuration file for pkg-config is libxml-2.0.pc, you have already installed it from libxml2-dev package. Like "libxml2-devel". I'm a bit at a loss here, xsltproc is /usr/bin/xsltproc. configure: error: Package requirements ( libxml-2.0 ) were not met: No package 'libxml-2.0' found Consider adjusting the PKG_CONFIG_PATH environment variable if you installed software in a non-standard prefix. ERROR: configuration failed for package XML How to access WhatsApp through Chrome Web browser? Understanding the probability of measurement w.r.t. So I'm not sure if this correct behaviour, since the libxml & libusb are both in the sysroot specified in the cmake line. [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C, attached base packages: Thanks for contributing an answer to Stack Overflow! -- Looking for strdup - found Updating HTML index of packages in '.Library' -- Detecting C compiler ABI info [1] BiocInstaller_1.26.1, loaded via a namespace (and not attached): Can I connect multiple USB 2.0 females to a MEAN WELL 5V 10A power supply? checking for sed /bin/sed Why does contour plot not show point(s) where function has a discontinuity? What is scrcpy OTG mode and how does it work? How about saving the world? Can you still use Commanders Strike if the only attack available to forego is an attack against an ally? How to combine several legends in one frame? Generating points along line with specifying the origin of point generation in QGIS. Order relations on natural number objects in topoi, and symmetry. Scanning dependencies of target iio See the pkg-config man page for more details. no checking for xmlParseFile in -lxml2. What is this brick with a round back and a stud on the side used for? [ 13%] Building C object CMakeFiles/iio.dir/buffer.c.o Are there any canonical examples of the Prime Directive being broken that aren't shown on screen? Does a password policy with a restriction of repeated characters increase security? from /usr/include/libxml2/libxml/xmlmemory.h:218, For me, this gives: Answers to some questions suggest adding the path to PKG_CONFIG_PATH. checking for sed /bin/sed What's the cheapest way to buy out a sibling's share of our parents house if I have no cash and want to pay less than the appraised value? [ 19%] Building C object CMakeFiles/iio.dir/buffer.c.o Worked fine on my manjaro machine with just the base-devel group installed. If total energies differ across different software, how do I decide which software to use? Looks like the new markdown functionality is affecting the last section`# Install XML` with an `a href` tags, but looks normal when I try to edit the post. checking for pkg-config /usr/bin/pkg-config You signed in with another tab or window. Browse other questions tagged. privacy statement. Which was the first Sci-Fi story to predict obnoxious "robo calls"? -- Generating done Parabolic, suborbital and ballistic trajectories all follow elliptic paths. While these issues shouldnt impact security, this improves robustness under With over 10 pre-installed distros to choose from, the worry-free installation life is here! OnDebian/Ubuntu you can install using apt-get as shown in the below command: Ran into similar issue when trying to install PHP SOAP extension. Thanks for contributing an answer to Stack Overflow! When a gnoll vampire assumes its hyena form, do its HP change? What does the power set mean in the construction of Von Neumann universe? Don't subscribeAllReplies to my comments 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? The pgModeler instruction includes "To check if the library is correctly installed" run this command: pkg-config libxml2.0 --cflags --libs Using libxml2. Bioconductor version 3.5 (BiocInstaller 1.26.1), ?biocLite for help 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. Not the answer you're looking for? See on the CRAN page https://cran.r-project.org/web/packages/XML/index.html SystemRequirements: libxml2 (>= 2.6.3) You need to install it before installing the R package. i.e. With. Why does contour plot not show point(s) where function has a discontinuity? 2019/07/20 configure: error: libxml2 not found. Also: shouldn't not finding libxml already throw an error in cmake? To learn more, see our tips on writing great answers. -- Looking for newlocale checking for gcc option to accept ISO C89 none needed Whether you are a digital nomad or just looking for flexibility, Shells can put your Linux machine on the device that you want to use. [ 23%] Building C object CMakeFiles/iio.dir/utilities.c.o If you also run: ./configure --help. Will check out your README and see if this fits in my project scope, which I think it should. To learn more, see our tips on writing great answers. The text was updated successfully, but these errors were encountered: The issue here isn't that you're missing xsltproc, but that you're missing the Autotools macro AX_PROG_XSLTPROC which looks for xsltproc. Tikz: Numbering vertices of regular a-sided Polygon, Embedded hyperlinks in a thesis or research paper. no configure: error: "libxml not found" ERROR: configuration failed for package 'XML' checking for xmlParseFile in -lxml no Could a subterranean river or aquifer generate enough continuous momentum to power a waterwheel for the purpose of producing electricity? i.e. configure: error: xml2-config not found. #include What is this brick with a round back and a stud on the side used for? On whose turn does the fright from a terror dive end? cmake --sysroot=${PWD}/../../../ubuntu-18.04.2-minimal-armhf-2019-02-16 ../ I can build libiio using "make all", but then "make install" fails trying to write to /usr/lib even though I've specified my own sysroot in the cmake line. Asking for help, clarification, or responding to other answers. Making 'packages.html' done -- Configuring done [1] compiler_3.4.1 tools_3.4.1. What are the advantages of running a power tool on 240 V vs 120 V? Thanks for trying omphalos! -- Detecting C compile features - done All symbol information has been removed from the ELF version script to fix How to combine several legends in one frame? So, why would I get "No package 'libxml2.0' found", and how might I fix this? 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 Easy way of installing it is using yum by issuing the following command on your CentOS/Fedora/RHEL Linux distributions. I have libxml2 version 2.9.9-2 installed with cmake 3.15.4 on my Manjaro system. 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]. -- Performing Test HAS_O_TMPFILE Downloaded the latest stable version of php ie, 5.5.7 and started to compile. [root@catest php-5.5.7]# yum install libxml2-devel thank you so much. Content Discovery initiative April 13 update: Related questions using a Review our technical responses for the 2023 Developer Survey, Pipe to/from the clipboard in a Bash script. -- Looking for stddef.h Literature about the category of finitary monads. Is it safe to publish research papers in cooperation with Russian academics? About 90 memory errors in code paths handling malloc failures have been fixed. Realistically they should be interchangeable packages. Because configure it self is autogenerated from configure.ac using autotools, When I try to do an upgrade or install something, apt (-get or aptitude) throw an error, saying that perl can't find XML/SAX/Debian.pm while trying to configure libxml-libxml-perl. configure: error: xml2-config not found. Platform: x86_64-pc-linux-gnu (64-bit) and false positives should be reduced. As the error message indicates, you need to specify the libxml2 path using PKG_CONFIG_PATH. Excellent :-) Good luck with your project! xml2 installed but not found during compilation. I'm hitting other issues now, will post a separate question if I can't work round these. checking for gzopen in -lz yes R itself was installed using anaconda. [ 15%] Building C object CMakeFiles/iio.dir/context.c.o I'm using autoconf 2.69. How a top-ranked engineering school reimagined CS curriculum (Ep. I have tried upgrading to 16.x but the upgrade process fails with errors need to zoom in into that another time. ^ checking for suffix of executables Alternatively, you may set the environment variables LIBXML_CFLAGS and LIBXML_LIBS to avoid the need to call pkg-config. configure: error: "libxml not found" Sign in Now this wont work. I made sure xml2 and libxml2 are installed (via sudo apt-get install) but that's not enough. Checking for 1.8: /home/***/anaconda3/include/libxml2/ "Python_DIR" to a directory containing one of the above files. By not providing "FindPython.cmake" in CMAKE_MODULE_PATH this project has Making statements based on opinion; back them up with references or personal experience. Browse other questions tagged. Sign in 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. cd libiio 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. [OpenStack Glance]: Failed to contact the endpoint at https://localhost:9292 for discovery. 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. privacy statement. Using Bioconductor 3.5 (BiocInstaller 1.26.1), R 3.4.1 (2017-06-30). 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, Package libprotobuf was not found in the pkg-config search path, OpenSSL installed but no openssl.pc (needed by pkg-config), Can't install RMagick 4.0.0. One other thing, changing the PATH produces following error with CMake: CMake Warning at CMakeLists.txt:289 (message): [ 7%] Building C object CMakeFiles/iio.dir/channel.c.o from /usr/include/libxml2/libxml/tree.h:1307, You have to ignore the suggestion from pgModeler documentation. What are the advantages of running a power tool on 240 V vs 120 V? Have a question about this project? Browse other questions tagged, Where developers & technologists share private knowledge with coworkers, Reach developers & technologists worldwide, How did you launch the R shell above? 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. You can get all the above info by running: it will tell you the full paths to all the files in that package.
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