I'm getting this error when I try to install VTK.
CMake Error at CMake/ExternalData.cmake:1005 (message):
Object MD5=66006f09007bd56bde48a899d4cebd47 not found at:
http://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&checksum=66006f09007bd56bde48a899d4cebd47&algorithm=MD5 (wrong hash MD5=a0a85923331d4faa2ba6ff130a19d946)
http://www.vtk.org/files/ExternalData/MD5/66006f09007bd56bde48a899d4cebd47 ("Timeout was reached")
Call Stack (most recent call first):
CMake/ExternalData.cmake:1027 (_ExternalData_download_object)
CMakeFiles/VTKData.dir/build.make:8742: recipe for target 'ExternalData/Domains/Chemistry/Testing/Data/Baseline/TestVASPAnimationReader.png.md5-stamp' failed
make[2]: [ExternalData/Domains/Chemistry/Testing/Data/Baseline/TestVASPAnimationReader.png.md5-stamp] Error 1
CMakeFiles/Makefile2:67: recipe for target 'CMakeFiles/VTKData.dir/all' failed
make[1]: [CMakeFiles/VTKData.dir/all] Error 2
Makefile:138: recipe for target 'all' failed
make: * [all] Error 2**
Here's what I did:
I unzipped my VTK downloaded files into a folder VTK
cd VTK
ccmake .
After configuring and generating in ccmake
make
The command executes for a while and then the above error shows. How do I fix this?
Related
I'm trying to cross compiling ROS Melodic for aarch64 on raspberry pi 3 with toolchain that created by buildroot.
I followed the document http://wiki.ros.org/ROS/CrossCompiling/RaspberryPi/Cross-Compile%20ROS%20for%20the%20RaspberryPi, the source of ROS I try to build comes from:
rosinstall_generator ros_comm --rosdistro melodic --deps --tar > melodic-ros_comm.rosinstall
wstool init -j8 src melodic-ros_comm.rosinstall
And I got the error messages like these:
[100%] Linking CXX shared library /home/developer/ros_pi/ros_catkin_ws/devel_isolated/class_loader/lib/libclass_loader.so
/home/developer/buildroot-2020.02.1/output/host/lib/gcc/aarch64-buildroot-linux-gnu/8.4.0/../../../../aarch64-buildroot-linux-gnu/bin/ld: /home/developer/buildroot-2020.02.1/output/host/aarch64-buildroot-linux-gnu/sysroot/usr/lib/libboost_thread.so: error adding symbols: file in wrong format
collect2: error: ld returned 1 exit status
CMakeFiles/class_loader.dir/build.make:180: recipe for target '/home/developer/ros_pi/ros_catkin_ws/devel_isolated/class_loader/lib/libclass_loader.so' failed
make[2]: *** [/home/developer/ros_pi/ros_catkin_ws/devel_isolated/class_loader/lib/libclass_loader.so] Error 1
CMakeFiles/Makefile2:195: recipe for target 'CMakeFiles/class_loader.dir/all' failed
make[1]: *** [CMakeFiles/class_loader.dir/all] Error 2
Makefile:140: recipe for target 'all' failed
make: *** [all] Error 2
<== Failed to process package 'class_loader':
Command '['/home/developer/ros_pi/ros_catkin_ws/install_isolated/env.sh', 'make', '-j8', '-l8']' returned non-zero exit status 2
Reproduce this error by running:
==> cd /home/developer/ros_pi/ros_catkin_ws/build_isolated/class_loader && /home/developer/ros_pi/ros_catkin_ws/install_isolated/env.sh make -j8 -l8
Command failed, exiting.
This is my toolchain.cmake:
set(CMAKE_SYSTEM_NAME Linux)
set(CMAKE_SYSTEM_VERSION 1)
set(CMAKE_LIBRARY_ARCHITECTURE aarch64)
set( CMAKE_CXX_IMPLICIT_INCLUDE_DIRECTORIES "/home/developer/buildroot-2020.02.1/output/host/aarch64-buildroot-linux-gnu/sysroot/usr/include/")
set( CMAKE_C_COMPILER aarch64-linux-gcc)
set( CMAKE_CXX_COMPILER aarch64-linux-g++)
set(CMAKE_FIND_ROOT_PATH "/home/developer/buildroot-2020.02.1/output/host/aarch64-buildroot-linux-gnu/sysroot")
set(CMAKE_FIND_ROOT_PATH_MODE_PROGRAM NEVER)
set(CMAKE_FIND_ROOT_PATH_MODE_LIBRARY ONLY)
set(CMAKE_FIND_ROOT_PATH_MODE_INCLUDE ONLY)
include_directories(/home/developer/buildroot-2020.02.1/output/host/aarch64-buildroot-linux-gnu/sysroot/usr/include/)
I guess the problem comes from boost?
The version of boost which I used is 1.65.1
All the steps I tried is contained in Dockerfile as link as below:
https://github.com/i-am-neet/cc-ros/blob/master/Dockerfile
Thank you for your patience
During the installation of SUMO (https://github.com/eclipse/sumo) on Ubuntu 16.04 VBox I face an error when i want to build (when i use make i get an error):
[ 80%] Built target _libsumo
[ 80%] Linking CXX shared module ../../../../bin/liblibsumojni.so
/usr/lib/java/bin/javac: 1: /usr/lib/java/bin/javac: Syntax error: word unexpected (expecting ")")
src/libsumo/CMakeFiles/libsumojni.dir/build.make:147: recipe for target '../../bin/liblibsumojni.so' failed
make[2]: *** [../../bin/liblibsumojni.so] Error 2
make[2]: *** Deleting file '../../bin/liblibsumojni.so'
CMakeFiles/Makefile2:1484: recipe for target 'src/libsumo/CMakeFiles/libsumojni.dir/all' failed
make[1]: *** [src/libsumo/CMakeFiles/libsumojni.dir/all] Error 2
Makefile:160: recipe for target 'all' failed
make: *** [all] Error 2
Any suggestions please ?
Thank you!
It is probably a problem with your java version. Unless you really need those Java bindings you can simply disable them when calling cmake like this:
cmake -DENABLE_JAVA_BINDINGS=OFF ../..
(this assumes you have a build dir like build/cmake-build as in the docs).
I am trying to install Elemental. I cloned it from the GitHub directory. Made a build directory and ran cmake command in it. But when I do a make, it shows the following error message:
[ 73%] Linking CUDA device code
CMakeFiles/EntrywiseMap.dir/cmake_device_link.o
nvcc fatal : Unknown option 'pthread'
tests/CMakeFiles/EntrywiseMap.dir/build.make:99: recipe for target
'tests/CMakeFiles/EntrywiseMap.dir/cmake_device_link.o' failed
make[2]: *** [tests/CMakeFiles/EntrywiseMap.dir/cmake_device_link.o]
Error 1
CMakeFiles/Makefile2:1506: recipe for target
'tests/CMakeFiles/EntrywiseMap.dir/all' failed
make[1]: *** [tests/CMakeFiles/EntrywiseMap.dir/all] Error 2
Makefile:140: recipe for target 'all' failed
make: *** [all] Error 2
I am using ubuntu 18, with cuda 10 and cmake version 3.13.4
What's the version of Cmake? This issue seems to be on CMake 3.12 and fixed on CMake 3.13
For me moving to the newer version of CMake 3.14.0 helped get past the issue.
I am trying to install NrrdIO on Ubuntu 18.04, to run Marching Cubes to segment medical images. This is the link from which I'm trying to run it.
http://web.cse.ohio-state.edu/research/graphics/isotable/
I'm trying to install ijkmcube-v0-3-3.tar, which requires the ITKNrrdIO.a library. I'm running into this error:
[ 7%] Linking CXX executable ijkmcube
/usr/bin/ld: cannot find -lNrrdIO
collect2: error: ld returned 1 exit status
CMakeFiles/ijkmcube.dir/build.make:406: recipe for target 'ijkmcube' failed
make[2]: *** [ijkmcube] Error 1
CMakeFiles/Makefile2:131: recipe for target 'CMakeFiles/ijkmcube.dir/all' failed
make[1]: *** [CMakeFiles/ijkmcube.dir/all] Error 2
Makefile:129: recipe for target 'all' failed
make: *** [all] Error 2
I've installed NrrdIO 1.11.0, and tried with NrrdIO 1.9.0 as well, but while running
make
I always run into this error, for some reason its not able to find lNrrdIO . Can someone please help?
Thanks
Edit:
I think its a problem with the linking, but when I copied the NrrdIO.a file to /usr/bin and modified the symbolic link to point to it, I got an error as follows:
[ 7%] Linking CXX executable ijkmcube
collect2: fatal error: cannot find 'ld'
compilation terminated.
CMakeFiles/ijkmcube.dir/build.make:406: recipe for target 'ijkmcube'
failed
make[2]: *** [ijkmcube] Error 1
CMakeFiles/Makefile2:131: recipe for target '
CMakeFiles/ijkmcube.dir/all' failed
make[1]: *** [CMakeFiles/ijkmcube.dir/all] Error 2
Makefile:129: recipe for target 'all' failed
make: *** [all] Error 2
Can someone help? Thank you
Edit 2
PROJECT(IJKMCUBE)
#---------------------------------------------------------
CMAKE_MINIMUM_REQUIRED(VERSION 2.8)
IF (NOT DEFINED ${IJK_DIR})
GET_FILENAME_COMPONENT(IJK_ABSOLUTE_PATH "../.." ABSOLUTE)
SET(IJK_DIR ${IJK_ABSOLUTE_PATH} CACHE PATH "IJK directory")
ENDIF (NOT DEFINED ${IJK_DIR})
SET(CMAKE_INSTALL_PREFIX "${IJK_DIR}/")
SET(LIBRARY_OUTPUT_PATH ${IJK_DIR}/lib CACHE PATH "Library directory")
SET(IJKMCUBE_DIR "src/ijkmcube")
SET(NRRD_LIBDIR "${IJK_DIR}/lib")
SET(IJK_ISOTABLE_DIR "${IJK_DIR}/isotable" CACHE PATH "Isotable
directory")
#---------------------------------------------------------
IF (NOT CMAKE_BUILD_TYPE)
SET (CMAKE_BUILD_TYPE Release CACHE STRING
"Default build type: Release" FORCE)
ENDIF (NOT CMAKE_BUILD_TYPE)
INCLUDE_DIRECTORIES("${IJK_DIR}/include")
LINK_DIRECTORIES("${NRRD_LIBDIR}")
LINK_LIBRARIES(expat NrrdIO z)
ADD_DEFINITIONS(-DIJK_ISOTABLE_DIR=\"${IJK_ISOTABLE_DIR}\")
ADD_EXECUTABLE(ijkmcube ijkmcube_main.cxx ijkmcubeIO.cxx ijkmcube.cxx
ijkmcube_datastruct.cxx ijkmcube_sub.cxx
ijkmcube_extract.cxx ijkmcube_util.cxx
ijksnapmc.cxx
ijktable.cxx ijktable_poly.cxx ijktable_ambig.cxx
ijkoctree.cxx ijkxitIO.cxx)
ADD_LIBRARY(ijkmcubeL STATIC EXCLUDE_FROM_ALL ijkmcubeIO.cxx
ijkmcube.cxx ijkmcube_datastruct.cxx ijkmcube_sub.cxx
ijkmcube_extract.cxx ijkmcube_util.cxx ijksnapmc.cxx
ijktable.cxx ijkoctree.cxx ijkxitIO.cxx)
SET_TARGET_PROPERTIES(ijkmcubeL PROPERTIES OUTPUT_NAME ijkmcube)
ADD_CUSTOM_TARGET(lib DEPENDS ijkmcubeL)
SET(CMAKE_INSTALL_PREFIX ${IJK_DIR})
INSTALL(TARGETS ijkmcube DESTINATION "bin/linux")
ADD_CUSTOM_TARGET(tar WORKING_DIRECTORY ../.. COMMAND tar cvfh
${IJKMCUBE_DIR}/ijkmcube.tar ${IJKMCUBE_DIR}/README
${IJKMCUBE_DIR}/INSTALL ${IJKMCUBE_DIR}/RELEASE_NOTES
${IJKMCUBE_DIR}/*.cxx ${IJKMCUBE_DIR}/*.h ${IJKMCUBE_DIR}/*.txx
${IJKMCUBE_DIR}/CMakeLists.txt ${IJKMCUBE_DIR}/man/*
${IJKMCUBE_DIR}/ijkmcube_doxygen.config)
ADD_CUSTOM_TARGET(doc COMMAND doxygen ijkmcube_doxygen.config)
SOLVED
Tsyvarev solved it, the libNrrdIO.a file has to be copied to /usr/lib/. Refer to comments for the exact solution
This answer was given by #Tsyvarev:
By making a link named ld you are removing the original linker (ld). Without the linker you definitely cannot build any library. What you need is to make a link named lNrrdIO.a, so it will point to the actual library location: sudo ln -sfn /home/subham/Downloads/NrrdIO-1.9.0-src/lNrrdIO.a lNrrdIO.a (run this command from /usr/lib directory). And restore original /usr/bin/ld file.
I installed the cudnn 7.1.2 by anaconda, and then install the coffe2 via anaconda following https://caffe2.ai/docs/getting-started.html?platform=mac&configuration=prebuilt ,but it reports that cannot find cudnn.h.
The error reports are:
In file included from /home/wangqm/anaconda3/conda-bld/caffe2-cuda9.0-cudnn7_1530109091069/work/caffe2/operators/depthwise_3x3_conv_op.cu:1:0:
/home/wangqm/anaconda3/conda-bld/caffe2-cuda9.0-cudnn7_1530109091069/work/caffe2/core/common_cudnn.h:7:19: fatal error: cudnn.h: No such file or directory
compilation terminated.
CMake Error at caffe2_gpu_generated_depthwise_3x3_conv_op.cu.o.Release.cmake:219 (message):
Error generating
/home/wangqm/anaconda3/conda-bld/caffe2-cuda9.0-cudnn7_1530109091069/work/build/caffe2/CMakeFiles/caffe2_gpu.dir/operators/./caffe2_gpu_generated_depthwise_3x3_conv_op.cu.o
caffe2/CMakeFiles/caffe2_gpu.dir/build.make:252: recipe for target 'caffe2/CMakeFiles/caffe2_gpu.dir/operators/caffe2_gpu_generated_depthwise_3x3_conv_op.cu.o' failed
make[2]: *** [caffe2/CMakeFiles/caffe2_gpu.dir/operators/caffe2_gpu_generated_depthwise_3x3_conv_op.cu.o] Error 1
make[2]: *** Waiting for unfinished jobs....
CMakeFiles/Makefile2:1458: recipe for target 'caffe2/CMakeFiles/caffe2_gpu.dir/all' failed
make[1]: *** [caffe2/CMakeFiles/caffe2_gpu.dir/all] Error 2
Makefile:140: recipe for target 'all' failed
make: *** [all] Error 2
I'm no Caffe2 expert, but this error means that you do not have the CUDNN library installed.
This means that you are trying to use the CUDA enabled Caffe framework and will want to install CUDA (probably version 9+) with the associated CUDNN libraries.
https://docs.nvidia.com/cuda/cuda-installation-guide-mac-os-x/index.html