I have succeeded with installing numpy and now I am trying to install scipy on Mavericks. The requirement is GFortran but when I am trying to install it, I get a message:
"Unapproved caller.
SecurityAgent may only be invoked by Apple software."
Does anyone know how I can fix this issue?
Restarting the computer has fixed the issue.
I was able to get around this by using the installer command instead of the gui
## SETUP
# get pacakge
wget http://coudert.name/software/gfortran-4.9.0-Mavericks.dmg
# mount
hdiutil attach gfortran-4.9.0-Mavericks.dmg
# issue with clicking desktop icon then pkg icon
# "Unapproved caller. SecurityAgent may only be invoked by Apple software"
## INSTALL
sudo installer -pkg /Volumes/gfortran-4.9.0-Mavericks/gfortran.pkg -target /
## test install
which gfortran
/usr/local/bin/gfortran
Another solution might be to use the brew/fink/macports package. I'm using this package instead of e.g. brew install gcc because (when R is compiling fortran code), I'm getting:
FATAL:/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../libexec/as/x86_64/as: I don't understand 'm' flag!
Related
I am trying to install SQL Developer on my laptop. I've download the file from Oracle and follow the instruction, I have RPM installed, but when I run rpm -Uhv sqldeveloper-21.4.3-063.0100.noarch.rpm, I encountered the following:
rpm: RPM should not be used directly install RPM packages, use Alien instead!
rpm: However assuming you know what you are doing...
warning: RPM v3 packages are deprecated: sqldeveloper-21.4.3-063.0100.noarch
error: Failed dependencies:
/bin/sh is needed by sqldeveloper-21.4.3-063.0100.noarch
What can I try next?
It looks like you are trying to run a package made for redhat based systems, but PopOS is debian based.
To proceed with the installation you must first install rpm2cpio, then you can extract it by running the command "# rpm2cpio datamodeler-21.4.2.059.0838-1.noarch.rpm", then you can access the extracted directory.
Then you can use the command "# ./sqldeveloper.sh" to run the application.
But, ensure you have a JDK installed You will be prompted to enter a jdk path. (ie usr/java/jdk1.8.0_181) SQL Developer will automatically launch once jdk location is provided
I'm trying to install Net::SSLeay with Carton.
The installation fails with this message
Configuring Net-SSLeay-1.90 Running Makefile.PL Do you want to run external tests?
These tests *will* *fail* if you do not have network connectivity. [n] n
*** Found LibreSSL-2.8.3 installed in /usr
*** Be sure to use the same compiler and options to compile your OpenSSL, perl, and Net::SSLeay. Mixing and matching compilers is not supported.
Checking if your kit is complete... Looks good
WARNING: /opt/homebrew/Cellar/perl/5.32.1_1/bin/perl is loading libcrypto in an unsafe way -> N/A
I've tried this with system perl, brew perl and multiple perlbrew perls.
Google came up with a temp solution to build homebrew using x86_64 architecture.
This did work for the libcrypto error, but gave me a whole different set of issues including mysql not running anymore.
Other "solutions" that I've tried are symlinking libssl & libcrypto as suggested by numerous other posts, all sadly without success.
Any ideas how to fix this or work around this without having to reinstall all brew packages as x86_64 ?
Quick Workaround
If you are looking for a quick workaround follow these steps.
Run carton bundle to create a vendor cache directory.
Go to cached tarball 'cache/authors/id/C/CH/CHRISN/' and unpack tar -xvzf Net-SSLeay-1.90.tar.gz
Edit Makefile.PL, change my $prefix = find_openssl_prefix(); to
my $prefix = '/opt/homebrew/opt/openssl#1.1'; ** adjust to your openssl location.
Save and create new tarball tar -czvf Net-SSLeay-1.90.tar.gz Net-SSLeay-1.90
Run carton install --cached to use the altered version
Hope this helps anyone in search of workaround
You can solve this in two steps:
upgrade ExtUtils::MakeMaker to at least version 7.58 (e.g. cpanm ExtUtils::MakeMaker)
install openssl via macports (sudo port install openssl) or homebrew (brew install --cask openssl)
After the Monterey update this broke again also on the x86_64 architecture, but just symlinking your latest openssl (where ever it is, depending how you have installed it) seemed to fix this. Example:
$ export OPENSSL_PREFIX=[find your openssl installation]
$ sudo ln -s $OPENSSL_PREFIX/lib/libssl.dylib /usr/local/lib/
$ sudo ln -s $OPENSSL_PREFIX/lib/libcrypto.dylib /usr/local/lib/
Better workaround:
I entered export OPENSSL_PREFIX=/opt/homebrew/opt/openssl#1.1 in my shell and then ran cpan. I checked the code in Makefile.PL and the first thing the function find_openssl_prefix does is to check the OPENSSL_PREFIX environment variable. If it is set, then it the function will return its contents.
Add the variable to your .profile, .cshrc, .bashrc, .zshrc, or whatever rc file your shell uses and you never have to worry about it again!!
I first installed Open Babel through brew. When I tried to run the command: "obabel -:"CC(=O)Cl" -opng -O mymol.png", I got this error message: " Open Babel Error in PNG Format
PNG2Format not found. Probably the Cairo library is not loaded." I then proceeded to use brew to uninstall Open Babel. Then, I installed Cairo with brew and then installed Open Babel with brew again. Still though, I try to create a PNG output and it gives me the same error message. I just do not know what's going on??
I’ve found that when using brew to install open-babel, I do not need to install Cairo in a separate step. The open-babel formula includes a '--with-cairo’ option that installs all the required dependencies, including Cairo.
Here is how I installed open-babel with Cairo support:
$ brew install --with-cairo open-babel
I am trying to install sipp with pcap-replay on winows7.
I have installed cygwnin, libncurse, and winpcap. I was trying to patch cygwin with IPv6 using the URL http://cygwin.win6.jp/cygwin-ipv6/, but it couldn't get the setup.ini file.
So I copied to local directory and upgrade, but it said no new updates.
And if I try to complie sipp. it gives error
$ ./configure.ac --with-pcap
./configure.ac: line 3: syntax error near unexpected token [SIPp],'
./configure.ac: line 3:AC_INIT([SIPp], [3.3], [sipp-users#lists.sourceforge.net], [sipp])'
Could anyone help me in getting sipp be installed on windows?
I download sipp.3.3.990 it has ./configure and was able to install on Linux.
But now on windows it still fails saying ncurse is not present. But I have downloaded it.
How do I troubleshoot it from here?
You can follow below steps to generate configure from configure.ac.
$> autoreconf -i
Now, you will see a configure file created at the same location.
To run the above command, following packages are required: automake,ncurses-devel,libncurses,M4 and autoconf.
if any of the above packages are missing run the cygwin setup file again and select the packages on the package selection screen and click install.
I'm trying to install the rackspace plugin for vagrant (1.5.1):
vagrant plugin install vagrant-rackspace
But it complains
Bundler, the underlying system Vagrant uses to install plugins,
reported an error. The error is shown below. These errors are usually
caused by misconfigured plugin installations or transient network
issues. The error from Bundler is:
An error occurred while installing nokogiri (1.6.1), and Bundler
cannot continue. Make sure that gem install nokogiri -v '1.6.1'
succeeds before bundling.
However gem install nokogiri -v '1.6.1' and /Applications/Vagrant/embedded/bin/gem install nokogiri -v '1.6.1' both work.
I've looked at a bunch of SO threads and blog posts. Things I've tried that have not worked
Running xcode-select --install
Installing full xcode
brew install gcc-4.2
Remove rvm and rvm version of ruby
Install nokogiri w/ built-in (mac) ruby and vagrant-embedded ruby
Despite the fact that nokogiri installs fine (#5 above) without sudo on both counts, vagrant plugin install vagrant-rackspace still fails...
So, in summary, I can install the nokogiri plugin, however I cannot install the vagrant rackspace plugin, can you help me get the plugin installed?
Related threads
Error to install Nokogiri on OSX 10.9 Maverick?
nokogiri - ERROR: Failed to build gem native extension
Full output of vagrant plugin install vagrant-rackspace --debug
I'm on OSX Mavericks and this worked for me:
Set as environment property:
NOKOGIRI_USE_SYSTEM_LIBRARIES=1
Then install as usual:
vagrant plugin install vagrant-rackspace
Vagrant ships with embedded Ruby and isolated gem environment. So installing gems manually to your "normal" gem environment won't help.
The first issue is that you should never use sudo to run any vagrant command. If possible, please remove ~/.vagrant.d/ or at least chown it recursively back to your own user. You could also try upgrading Vagrant to v1.5.1.
Then please gist/pastebin the output of vagrant plugin install vagrant-rackspace --debug and ~/.vagrant.d/gems/gems/nokogiri-1.6.1/ext/nokogiri/mkmf.log.
The posted solutions didn't work for me. Instead I needed to specify the libxml2, libxslt and libiconv that I installed with homebrew (Do this first).
I installed the gem manually with the embedded ruby with the following [very concise] command line:
/Applications/Vagrant/embedded/bin/gem install \ # select the embedded ruby
--install-dir ~/.vagrant.d/gems \ # install to the vagrant dir
nokogiri -v '1.6.2.1' -- \ # pass options to nokogiri install
--with-xml2-include=/usr/local/Cellar/libxml2/2.7.8/include/libxml2 \
--with-xml2-lib=/usr/local/Cellar/libxml2/2.7.8/lib \
--with-xslt-dir=/usr/local/Cellar/libxslt/1.1.26 \
--with-iconv-include=/usr/local/Cellar/libiconv/1.13.1/include \
--with-iconv-lib=/usr/local/Cellar/libiconv/1.13.1/lib
This worked for me on Mavericks and Vagrant 1.6.1:
CC=/usr/bin/gcc vagrant plugin install vagrant-rackspace
I tried NOKOGIRI_USE_SYSTEM_LIBRARIES=1 but got an error saying that system libxml2 is too old.
Warning: This is a super-hacky solution, though it's hard to call it that.
Yesterday I installed Vagrant on another OSX Mavericks box. Like many other posts I read on SO "all I had to do" was run xcode-select --install and bingo vagrant plugin install vagrant-rackspace worked like a charm.
Today I was mired down in the Bundler code again when it dawned on me that since this is an isolated ruby environment why not nuke my ~/.vagrant.d directory and copy the same directory from the successful build on the other box...
The result? A working vagrant rackspace on my laptop! I'm not sure I'll ever figure out what was really wrong, but if anyone wants a shot at the 100 point bounty, I'm still open to suggestions!
In my case the nokogiri folders and their files located in ~/vagrant.d/gems/gems had wrong rights (user/group).
After changing them to username:staff (username being your console user name), it works like a charm.
Similarly with my case, I have an issue while installing vagrant-omnibus plugin for Vagrant 1.6.3 on OSX Mavericks 10.9.4 and ruby 2.0.0p247 rbenv.
I tried setting the env NOKOGIRI_USE_SYSTEM_LIBRARIES to 1 or true, then update+install but the same error still there.
I found that there is a suggestion in https://github.com/mitchellh/vagrant/issues/3769 to use the specify the baked in nokogiri version and this works for me. So, I also wrote a quick noted for myself to refer this unfortunates issue.
If Nate Murray's solution doesn't work, I found upgrading to a Vagrant version > 1.6.4 fixed the issue (as noted in this Github issue: https://github.com/mitchellh/vagrant/issues/3769)
in my case while trying to install vagrant-parallels, i had to check the Command line tools folder had an error in the naming for some reason. Fixing that allowed nokigiri to work well