I am trying to install CASAVA Bcl2Fastq 1.8.3 (developed for CentOS) on Ubuntu 12.04 LTS. However, I got an error message "No support for gzip compression" and the install failed. Luckily, I found a solution for this problem:
sudo ln -s /usr/lib/x86_64-linux-gnu/libpthread* /usr/lib
sudo ln -s /usr/lib/x86_64-linux-gnu/libz.so /usr/lib
But now I got another similar error "No support for bzip2 compression". I am wondering if I can do something similar to solve this error?
I finally solved this by linking the bzip2 library file in /usr/lib/x86_64-linux-gnu/ to /usr/lib:
sudo ln -s /usr/lib/x86_64-linux-gnu/libbz2* /usr/lib
But I am wondering why gcc cannot find the library files automatically, is it a problem of my Unbuntu installation or some incompatibility of the CASAVA Bcl2Fastq 1.8.3 software (because it was developed and tested on CentOS)?
For those returning to this issue - if you can't find any of the appropriate libbz2* files under /usr/lib/x86_64-linux-gnu/, try:
sudo apt-get install libbz2-dev libbz2
Related
I'm trying to install OpenVPN on macOS High Sierra
I have cloned the github repo:
git clone https://github.com/OpenVPN/openvpn
And switched to the latest stable branch:
git checkout origin release/2.4
But when I tried to build the project (following the INSTALL instructions):
autoreconf -i -v -f
./configure
I had this error during the configure step:
configure: error: lzo enabled but missing
Even after installing lzo dependency with macos ports, the problem persists.
The answer to this problem was easier than I thought...
I had just to define the env vars CFLAGS and LDFLAGS before running configure script:
export CFLAGS="-I/opt/local/include"
export LDFLAGS="-L/opt/local/lib"
./configure
make
sudo make install
UPDATE
If you had to install lzo:
using brew: brew install lzo or brew link lzo in case it already exists
using port: sudo port install lzo
I use a M1 MacBook Pro so freedev's answer did not work. I had to instead include the library from inside the homebrew directories so my final configure command was:
./configure LDFLAGS="-L/opt/homebrew/lib -L/opt/homebrew/opt/openssl#3/lib" CPPFLAGS="-I/opt/homebrew/include -I/opt/homebrew/opt/openssl#3/include"
The following resolved the issue for me:
sudo apt-get install libssl-dev liblzo2-dev libpam0g-dev
I got this fix from this askubuntu.com openvpn lzo enabled but missing question.
More details: I got each of the 3 error messages shown below separately. Each one was resolved, then I got the next. All 3 are resolved with the one command line above. Basically, 3 developer packages were missing.
configure: error: OpenSSL version too old (resolved with libssl-dev)
configure: error: lzo enabled but missing (resolved with liblzo2-dev)
configure: error: libpam required but missing (resolved with libpam0g-dev)
Thanks to all the other answers which helped to confirm things, triangulate to the answer I felt most confident about!
I am trying to use Protobuf on Linux box. I downloaded the pre-compiled from github.
When I try to compile my .proto file or just check the protobuf version, it says
protoc: command not found.
I tried the same steps on Windows machine using pre-compiled protobuf version and it works fine there.
Install protoc for Linux and Mac
Linux
PROTOC_ZIP=protoc-3.15.8-linux-x86_64.zip
curl -OL https://github.com/google/protobuf/releases/download/v3.15.8/$PROTOC_ZIP
sudo unzip -o $PROTOC_ZIP -d /usr/local bin/protoc
sudo unzip -o $PROTOC_ZIP -d /usr/local include/*
rm -f $PROTOC_ZIP
Mac OS X
brew install protobuf
Alternately, if you don't have Homebrew.
PROTOC_ZIP=protoc-3.15.8-osx-x86_64.zip
curl -OL https://github.com/google/protobuf/releases/download/v3.15.8/$PROTOC_ZIP
sudo unzip -o $PROTOC_ZIP -d /usr/local bin/protoc
sudo unzip -o $PROTOC_ZIP -d /usr/local 'include/*'
rm -f $PROTOC_ZIP
source: http://google.github.io/proto-lens/installing-protoc.html
For Linux Ubuntu 20, only install with snap
snap install protobuf --classic
or via apt, with:
sudo apt install protobuf-compiler
You can try it:
Install grpc and protobuf
brew install grpc protobuf
I know this question is specifically asked for Linux and I could n't find any question as it relates to solving this error on Windows.
This might help people who encounter the same error on windows.
Step 1: Download the windows distribution (protoc-3.5.0-win32.zip) from the link protobuf and unzip locally to a folder
Step 2 : Add the folder path to the path in the system environment variables.
Step 3: close the command prompt, restart the command prompt and try the command protoc
I might be late to the party but I also had "command not found" when trying to run protoc. It turned out it was just missing the execute permission. A quick chmod +x protoc fixed this for me.
I am installing Janus WebRTC Gateway in a Ubuntu Machine (14.04 64 bit). I followed the instructions as in the following link:
However, I get the following error when trying to execute janus:
https://github.com/meetecho/janus-gateway (readme.md file)
[FATAL] [janus.c:main:3670] No Janus API transport is available...
enable at least one and restart Janus
Anyone has any idea what the issue might be? I will only use the REST API without WebStockets or RabbitMQ.
I successfully installed Janus on Ubuntu 14 according to the following steps:
sudo apt-get install libmicrohttpd-dev libjansson-dev libnice-dev libssl-dev libsrtp-dev libsofia-sip-ua-dev libglib2.0-dev libopus-dev libogg-dev libini-config-dev libcollection-dev libwebsockets-dev pkg-config gengetopt automake libtool doxygen graphviz git cmake
sudo apt-get install libavformat-dev
mkdir -p ~/build
cd ~/build
git clone git://github.com/meetecho/janus-gateway.git
cd janus-gateway
sh autogen.sh
./configure --disable-data-channels --disable-websockets --disable-rabbitmq --disable-docs --prefix=/opt/janus LDFLAGS="-L/usr/local/lib -Wl,-rpath=/usr/local/lib" CFLAGS="-I/usr/local/include"
make && sudo make install
sudo make configs
Running it by:
cd /opt/janus/bin/
./janus -F /opt/janus/etc/janus/
I had this issue before, I had write a script to install everything just run this
wget https://gist.githubusercontent.com/johnmelodyme/966f474a99b6dd0cf4e7ac19ba4258da/raw/0f1779499c62eeee3e2a577ef641e94e57b71154/janus.sh && sh janus.sh
Hope This Help Much, I believe there are certain dependencies needs to be installation but you missed it. In https://github.com/meetecho/janus-gateway it stated the Dependencies needed, have to be installed without error.
It is because libmicrohttpd version is lower than requirement, Download and install libmicrohttpd manually (dont use yum or apt-get).
Trying to follow the directions from: http://github.com/zeromq/jzmq
I installed pkg-config using Homebrew and then I run the following commands:
./autogen.sh
./configure
The configure fails with:
checking how to hardcode library paths into programs... immediate
./configure: line 15263: syntax error near unexpected token `newline'
./configure: line 15263: ` PKG_CHECK_MODULES('
A better solution is:
eval `brew --config | grep HOMEBREW_PREFIX | sed 's/: /=/'`
sudo bash -c 'echo '$HOMEBREW_PREFIX/share/aclocal' >> `aclocal --print-ac-dir`/dirlist'
This will allow the version of aclocal that ships with OSX to find any macros installed by homebrew packages.
With homebrew, the key is the warning message:
~/code/foss/java/jzmq$ brew install pkg-config
==> Downloading http://pkg-config.freedesktop.org/releases/pkg-config-0.25.tar.gz
==> ./configure --disable-debug --prefix=/usr/local/Cellar/pkg-config/0.25 --with-pc-path=/usr/local/lib/pkgconfig:/usr/lib/pkgconfig:/usr/X11/lib/pkgconfig
==> make install
Warning: m4 macros were installed to "share/aclocal".
Homebrew does not append "/usr/local/share/aclocal"
to "/usr/share/aclocal/dirlist". If an autoconf script you use
requires these m4 macros, you'll need to add this path manually.
==> Summary
/usr/local/Cellar/pkg-config/0.25: 8 files, 232K, built in 19 seconds
If you look at /usr/local/Cellar/pkg-config/0.25/share/aclocal/, you will see:
$ ls /usr/local/Cellar/pkg-config/0.25/share/aclocal/
pkg.m4
You need to append /usr/local/Cellar/pkg-config/0.25/share/aclocal/ to /usr/share/aclocal/dirlist,like this:
$ cat /usr/share/aclocal/dirlist
/usr/local/share/aclocal
/usr/local/Cellar/pkg-config/0.25/share/aclocal/
And then re-run autogen and the other steps.
I made a simple list about jzmq building for MacOS.
Install brew
https://brew.sh
Install tools for jzmq building
brew install autoconf
brew install automake
brew install libtool
brew install pkg-config
brew install zeromq#3.2
Download jzmq source
https://github.com/zeromq/jzmq source download to ~/somewhere/jzmq
Add symbolic link to /usr/local/include
cd /usr/local/include
ln -s /usr/local/Cellar/zeromq\#3.2/3.2.5/include/zmq.h
ln -s /usr/local/Cellar/zeromq\#3.2/3.2.5/include/zmq_utils.h
Add symbolic linke to /usr/local/lib
cd /usr/local/lib
ln -s /usr/local/Cellar/zeromq\#3.2/3.2.5/lib/libzmq.3.dylib
ln -s /usr/local/Cellar/zeromq\#3.2/3.2.5/lib/libzmq.a
ln -s /usr/local/Cellar/zeromq\#3.2/3.2.5/lib/libmq.dylib
ln -s /usr/local/Cellar/zeromq\#3.2/3.2.5/lib/pkgconfig/
Build jzmq-jni
cd ~/somewhere/jzmq
cd jzmq-jni
./autogen.sh
./configure
make
make install
Add option to VM options
VM options -Djava.library.path=/usr/local/lib
From the zeromq mailing list:
Building 0MQ from the development
trunk on a UNIX style OS (Linux, OS X)
requires that pkg-config
(http://pkg-config.freedesktop.org/wiki/)
be installed. A regular source build
of 0MQ does not require pkg-config.
On Mac OS X, pkg-config does not come
with the system, so when you try to do
./configure you may see errors like:
./configure: line 23913: syntax error near unexpected token `GLIB,'
./configure: line 23913: `PKG_CHECK_MODULES(GLIB, glib-2.0 gthread-2.0)'
To resolve this, you need to install
the latest pkg-config:
tar xzf pkg-config-0.25.tar.gz
cd pkg-config-0.25
./configure --prefix=/usr/local/pkg-config-0.25 --datarootdir=/usr/share
make
sudo make install
Then you will need to put
/usr/local/pkg-config-0.25/bin on your
$PATH. It is important to include the
"--datarootdir=/usr/share" option,
which will install the pkg.m4 file in
/usr/share/aclocal, where aclocal will
be able to find it.
Then you can build 0MQ:
cd zeromq2
./autogen.sh # must do this again after installing pkg-config
./configure # add other options here
make
sudo make install
Edited to reflect latest pkg-config version (0.25).
I came here with the same question, and I don't feel this is answered. I also installed ZeroMQ and pkg-config via Homebrew. /usr/local/share/aclocal/pkg.m4 exists and comes from pkg-config 0.25. It seems that Homebrew has satisfied the requirements listed but it still fails.
Trying to compile jzmq on Mac OS X, proved to be a bit of a headache. I followed the instructions above. I was still getting following error
syntax error near unexpected token
`PKG_CHECK_MODULES
The instructions above tell you to copy the pkgk.m4 file into /usr/share/aclocal, but your directory might be different. Basically you need the dir that automake searches for macro definitions.
The _PKG_CHECK_MODULES_ macro is defined in the pkg.m4 file. This file must be installed in the appropriate directory, which is searched by automake. Somehow automake is installed twice on my OS X, one in /usr and another in /Developer/usr. Make sure you know which one it's using. Just do which automake. If yours in is /Developer/usr, then copy the pkg.m4 file to /Developer/usr/share/aclocal.
For me, the problem was that I didn't have pkg-config installed.
On Osx Mountain Lion I don't have the dirlist file as Phil Calçado said, but a simple symlink from /usr/local/Cellar/pkg-config/[version]/share/aclocal/pkg.m4 to /usr/share/aclocal made the trick and now jzmq build fine.
I try download lighttpd 1.4.23 source, and compile it on MacOSX 10.5.5.
This is the error I am getting:
$ ./autogen.sh
./autogen.sh: running `libtoolize --copy --force'
./autogen.sh: line 19: libtoolize: command not found
I tried ask the same question on lighttpd forum, but I can't get any help there.
Thanks in advance.
libtoolize is part of GNU libtool, a package for building libraries portably. On the Mac, one option for getting it is to use MacPorts, a package manager which works in a similar fashion as Gentoo and FreeBSD, in that it compiles packages on your machine. See http://www.macports.org/install.php.
Beware, though, that it will be installed as glibtoolize, i.e. with a 'g' prefixed. That is a standard way to make GNU tools live in parallel with UNIX tools of the same name, that might be present (even though there isn't one in this particular case).
The command for installing libtool from MacPorts is: sudo port install libtool
Add a '-d' flag after the 'port' command to see the build output.
Here's what I use to install lighttpd 1.4.25 on Mac OS X 10.6.2. If I remember correctly, the same thing worked for me in a recent version of Mac OS X 10.5.
Install Xcode Developer Tools
Either install them from the DVD that came with your Mac (under Optional Installs) or download them from Apple's developer page.
Install PCRE
curl -O http://softlayer.dl.sourceforge.net/project/pcre/pcre/7.9/pcre-7.9.tar.gz
tar xzf pcre-7.9.tar.gz
cd pcre-7.9
./configure
make && sudo make install
cd ../
Install lighttpd
curl -O http://download.lighttpd.net/lighttpd/releases-1.4.x/lighttpd-1.4.25.tar.gz
tar xzf lighttpd-*.tar.gz
cd lighttpd-*
./configure
make && sudo make install
Note that the URLs above will quickly go out of date; you may need to download the latest versions of the .tar.gz packages from a different location.