I am using the last version on LYX 2.0.5.1 and RStudio 0.97.318. I have installed knitr in R, my /usr/bin/Rscript is in PATH prefix in LYX, but I still fail to run even example files knitr.lyx. The error I get is:
An error occurred while running:
Rscript --verbose --no-save --no-restore
"/Applications/LyX.app/Contents/Resources/scripts/lyxknitr.R"
"/var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL9170/lyx_tmpb...
I changed lyxknitr.R to other versions listed on the official cite, it does not work with them either. When I did the similar things on Windows 7, it runs ok. I tried to reinstall lyx, it did not help. What else can I do?
Thanks!
UPDATE: I installed the stringer package in R, reconfigured, but Lyx still gives and error:
12:24:25.747: Rscript --verbose --no-save --no-restore "/Applications/LyX.app/Contents/Resources/scripts/lyxknitr.R" "/var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpbuf3/""knitr.Rnw" "/var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpbuf3/""knitr.tex" ISO-8859-15 "/Users/Natasha/Stats315b/HW1/"
12:24:25.749: running
12:24:25.758: '/Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R --slave --no-restore --no-save --no-restore --file=/Applications/LyX.app/Contents/Resources/scripts/lyxknitr.R --args /var/folders/ls/
12:24:25.759: mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpbuf3/knitr.Rnw /var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpbuf3/knitr.tex ISO-8859-15'
12:24:25.759:
12:24:25.946: Error in loadNamespace(i, c(lib.loc, .libPaths())) :
12:24:25.951: there is no package called 'stringr'
12:24:25.957: Error: package/namespace load failed for 'knitr'
12:24:25.957: Execution halted
Running: Rscript --verbose --no-save --no-restore "/Applications/LyX.app/Contents/Resources/scripts/lyxknitr.R" "/var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpbuf3/""knitr.Rnw" "/var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpbuf3/""knitr.tex" ISO-8859-15 "/Users/Natasha/Stats315b/HW1/"
support/Systemcall.cpp (273): Systemcall: 'Rscript --verbose --no-save --no-restore "/Applications/LyX.app/Contents/Resources/scripts/lyxknitr.R" "/var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpbuf3/""knitr.Rnw" "/var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpbuf3/""knitr.tex" ISO-8859-15 "/Users/Natasha/Stats315b/HW1/"' finished with exit code 1
Error: Cannot convert file
----------------------------------------
An error occurred while running:
Rscript --verbose --no-save --no-restore
"/Applications/LyX.app/Contents/Resources/scripts/lyxknitr.R"
"/var/folders/ls/mbs_stj505lc25gj2m7h5h100000gn/T/lyx_tmpdir.JL2777/lyx_tmpb...
12:24:27.545: Error while previewing format: pdf2
I did not have to install stringr under windows and it worked ok. Thanks for help!
Related
when I try to install reNgine recon tool, it always stops at (32/51) and gives me this error, I tried searching for it but no luck
failed to solve: executor failed running [/bin/sh -c GO111MODULE=on go install -v github.com/projectdiscovery/nuclei/v2/cmd/nuclei#latest]: exit code: 2
make: *** [Makefile:22: up] Error 17
I tried to run
GO111MODULE=on go install -v github.com/projectdiscovery/nuclei/v2/cmd/nuclei#latest
and reinstall it but the same Error pops up
Collecting psycopg2 Using cached psycopg2-2.8.5.tar.gz (380 kB)
ERROR: Command errored out with exit status 1: command: /home/ubuntu/egrdb/env/bin/python -c 'import sys, setuptools, tokenize; sys.argv0 = '"'"'/tmp/pip-install-gn70jweq/psycopg2/setup.py'"'"'; file='"'"'/tmp/pip-install-gn70jweq/psycopg2/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' egg_info --egg-base /tmp/pip-pip-egg-info-4tr67ll8 cwd: /tmp/pip-install-gn70jweq/psycopg2/ Complete output (7 lines): running egg_info creating /tmp/pip-pip-egg-info-4tr67ll8/psycopg2.egg-info writing /tmp/pip-pip-egg-info-4tr67ll8/psycopg2.egg-info/PKG-INFO writing dependency_links to /tmp/pip-pip-egg-info-4tr67ll8/psycopg2.egg-info/dependency_links.txt writing top-level names to /tmp/pip-pip-egg-info-4tr67ll8/psycopg2.egg-info/top_level.txt writing manifest file '/tmp/pip-pip-egg-info-4tr67ll8/psycopg2.egg-info/SOURCES.txt' Error: b'You need to install postgresql-server-dev-X.Y for building a server-side extension or libpq-dev for building a client-side application.\n'
----------------------------------------
ERROR: Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output.
If you want to install the source version psycopg2-2.8.5.tar.gz then you will need to do as #Chris says. The simpler way though is to do:
pip install psycopg2-binary
Then you get a pre-compiled version and you don't need the -dev packages.
I have created a simple RPM on Fedora27 and it worked fine. It just copied files from tar.gz to /usr/bin/.
When I tried to install this RPM on CentOS I got:
# rpm -i RPMS/x86_64/my_rpm-0.0-5.x86_64.rpm --force
error: Failed dependencies:
libc.so.6(GLIBC_2.26)(64bit) is needed by my_rpm-0.0-5.x86_64
So I assumed I will need to create the RPM on CentOS.
But when I do so I get a weird: 'No such file or directory' that I don't get on Fedora27. Here is a sketch of my spec file:
%define _topdir %(pwd)
%define name my_rpm
%define release 5
%define version 0.0
%define buildroot %{_topdir}/%{name}-%{release}-root
BuildRoot: %{buildroot}
Summary: my_rpm
License: -
Name: %{name}
Release: %{release}
Version: %{version}
Source: %{name}-%{version}-%{release}.tar.gz
Prefix: /usr
Group: Tools
%description
This is my_rpm spec file
%prep
%setup -q -n %(arch)/%{name}-%{version}
%install
install -D my_app -t %{buildroot}/usr/bin/my_rpm/
%files
/usr/bin/my_rpm/*
When I try to build the RPM for it I get:
# rpmbuild -v -bb --clean SPECS/bpf.spec
+ install -D app -t /root/rpmbuild/BUILDROOT/my_rpm-0.0-5.x86_64/usr/bin/my_rpm/
install: failed to access '/root/rpmbuild/BUILDROOT/my_rpm-0.0-5.x86_64/usr/bin/my_rpm/': No such file or directory
The same SPEC exactly runs smoothly on Fedora27.
What should I change in it my spec file so that it would work both on Fedora27 and CentOS7? or maybe I can fix my initial problem with Glibc?
EDIT 1
I added the "mkdir -p ..." command under install and the build was successful but it still gives me the same error, that I need Glibc 2.6.
What I don't understand is why during the build it says:
Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.26)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libc.so.6(GLIBC_2.9)(64bit) libelf.so.1()(64bit) libelf.so.1(ELFUTILS_1.0)(64bit) rtld(GNU_HASH)
Edit 2(solution)
I got it to work. My executables are compiled C code. So I had to re-compile everything on CentOS and then build the rpm. Now it works on both Fedora and CentOS.
I am testing AWS for launching web service.
I stuck with pg_config. Error log is
/app/requirements.txt (line 1))
Using cached psycopg2-2.6.2.tar.gz
Complete output from command python setup.py egg_info:
running egg_info
creating pip-egg-info/psycopg2.egg-info
writing pip-egg-info/psycopg2.egg-info/PKG-INFO
writing dependency_links to pip-egg-info/psycopg2.egg-info/dependency_links.txt
writing top-level names to pip-egg-info/psycopg2.egg-info/top_level.txt
writing manifest file 'pip-egg-info/psycopg2.egg-info/SOURCES.txt'
warning: manifest_maker: standard file '-c' not found
Error: pg_config executable not found.
Please add the directory containing pg_config to the PATH
or specify the full executable path with the option:
python setup.py build_ext --pg-config /path/to/pg_config build ...
or with the pg_config option in 'setup.cfg'.
There are many solutions in stackoverflow, but it doesn't work for me.
packages:
yum:
python-devel: []
postgresql95-devel: []
libjpeg-devel: '6b'
container_commands:
01_migrate:
command: "python manage.py migrate"
02_collectstatic:
command: "python manage.py collectstatic --noinput"
03_createsu:
command: "python manage.py createsu"
leader_only: true
option_settings:
"aws:elasticbeanstalk:application:environment":
DJANGO_SETTINGS_MODULE: "onreview.settings"
PYTHONPATH: "$PYTHONPATH"
"aws:elasticbeanstalk:container:python":
WSGIPath: "onreview/wsgi.py"
This is my .ebextensions/python.config files contents. And I'm uploading through zipping my source code.
I changed postgresql95-devel to postgresql-devel, 93, 94, all of it. And I use 9.5 version db right now.
I think --pg-config's path is problem. but I can't change it.
Is there any solution??
p.s I do not want to setup inside the EC2 instance through SSH or something.
You have a syntax error in your original post, packages: should not be indented. I don't know why you have python-devel when python is included in the install, so I can't say that it isn't interfering. Likewise with the line setting the python path.
packages:
yum:
python-devel: []
postgresql95-devel: []
libjpeg-devel: '6b'
container_commands:
01_migrate:
command: "python manage.py migrate"
02_collectstatic:
command: "python manage.py collectstatic --noinput"
03_createsu:
command: "python manage.py createsu"
leader_only: true
option_settings:
aws:elasticbeanstalk:application:environment:
DJANGO_SETTINGS_MODULE: "onreview.settings"
PYTHONPATH: "$PYTHONPATH"
aws:elasticbeanstalk:container:python:
WSGIPath: "onreview/wsgi.py"
I'm running into an issue installing a package that's reliant on ocamlfind but I'm getting an ocamlfind: command not found error when making.
I have installed ocamlfind with the ocaml package manager and have tried reinstalling using "opam reinstall ocamlfind".
I have also tried the 'eval opam config env' command to see if updates my bin.
Has anyone run into a similar issue/know what this might be caused by
The output when running the make:
make
ocamlfind ocamlc -pp "camlp4o -I lib/dcg -I lib/ipp pa_dcg.cmo pa_ipp.cmo" -w usy -thread -I lib -I lib/dcg -I lib/ipp -c semantics.ml
/bin/sh: ocamlfind: command not found
The output when trying ocamlfind
ocamlfind
-bash: ocamlfind: command not found
ocaml is installed
opam install ocamlfind
[NOTE] Package ocamlfind is already installed (current version is 1.5.5).
and when running the eval command
eval 'opam config env'
CAML_LD_LIBRARY_PATH="/home/centos/.opam/system/lib/stublibs:/usr/lib64/ocaml/stub libs"; export CAML_LD_LIBRARY_PATH;
MANPATH="/home/centos/.opam/system/man:"; export MANPATH;
PERL5LIB="/home/centos/.opam/system/lib/perl5"; export PERL5LIB;
OCAML_TOPLEVEL_PATH="/home/centos/.opam/system/lib/toplevel"; export OCAML_TOPLEVEL_PATH;
PATH="/home/centos/.opam/system/bin:/usr/lib64/qt-3.3/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/home/centos/.local/bin:/home/centos/bin"; export PATH;
I'm on a server running centos 7
This command
eval 'opam config env'
is almost assuredly a typo and was supposed to be
eval `opam config env`
though using $(...) instead is the modern equivalent and avoids this font-fact confusion
eval $(opam config env)
That being said that just sets the environment variables in the current shell session (and exports them for use by processes run by this shell session).
As such that needs to be run in every shell session that needs those set (including each line of the makefile that expects them to be set if the environment that runs make doesn't already have them set and exported).
try
sudo apt-get install ocaml-findlib