Hi Rick,
So it sounds like you are saying that 3dMVM is no longer compatible with Red Hat 7 clones? Is it known to work with Red Hat 8 clones?
I receive a FAILURE error (see below) for 3dMVM when installing AFNI on Rocky Linux 8.9. I followed the Rocky Linux 8 instructions from the discussion board and used the Rocky Linux 8 binaries.
https://github.com/afni/afni/blob/master/src/other_builds/OS_notes.linux_rocky_8.txt
https://afni.nimh.nih.gov/pub/dist/tgz/linux_rocky_8.tgz
Below are the afni_check and rPkgsInstall outputs.
-------------------------------- general ---------------------------------
architecture: 64bit ELF
cpu type: x86_64
system: Linux
release: 4.18.0-513.11.1.el8_9.0.1.x86_64
version: #1 SMP Sun Feb 11 10:42:18 UTC 2024
distribution: Rocky Linux 8.9 (Green Obsidian)
number of CPUs: 6
apparent login shell: bash
shell RC file: .bashrc (exists)
--------------------- AFNI and related program tests ---------------------
which afni : /home/sdc/abin/afni
afni version : Precompiled binary linux_rocky_8: Mar 18 2024
: AFNI_24.0.14 'Caracalla'
AFNI_version.txt : AFNI_24.0.14, linux_rocky_8, Mar 18 2024, official
which python : /home/sdc/miniconda3/envs/py3_afni_tiny/bin/python
python version : 3.12.1
which R : /usr/bin/R
R version : R version 4.3.3 (x86_64-redhat-linux-gnu)
instances of various programs found in PATH:
afni : 1 (/home/sdc/abin/afni)
R : 1 (/usr/bin/R)
python : 2
/home/sdc/miniconda3/envs/py3_afni_tiny/bin/python3.12
/usr/libexec/platform-python3.6
python2 : 0
python3 : 2
/home/sdc/miniconda3/envs/py3_afni_tiny/bin/python3.12
/usr/libexec/platform-python3.6
** have python3 but not python2
testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : success
3dAllineate : success
3dRSFC : success
SurfMesh : success
3dClustSim : success
uber_subject.py : success
3dMVM : FAILURE
Error in library(data.table) : there is no package called ‘data.table’
Calls: source ... suppressPackageStartupMessages -> withCallingHandlers -> library
Execution halted
------------------------ dependent program tests -------------------------
checking for dependent programs...
which tcsh : /usr/bin/tcsh
which Xvfb : /usr/bin/Xvfb
checking for R packages...
rPkgsInstall -pkgs ALL -check : FAILURE
oo Warning:
These packages are not installed on the computer: afex!
These packages are not installed on the computer: phia!
These packages are not installed on the computer: lme4!
These packages are not installed on the computer: lmerTest!
These packages are not installed on the computer: gamm4!
These packages are not installed on the computer: data.table!
These packages are not installed on the computer: brms!
R RHOME : /usr/lib64/R
------------------------------ python libs -------------------------------
++ module loaded: matplotlib.pyplot
module file : /home/sdc/miniconda3/envs/py3_afni_tiny/lib/python3.12/site-packages/matplotlib/pyplot.py
matplotlib version : 3.8.0
++ module loaded: flask
module file : /home/sdc/miniconda3/envs/py3_afni_tiny/lib/python3.12/site-packages/flask/__init__.py
flask version : 2.2.5
++ module loaded: flask_cors
module file : /home/sdc/miniconda3/envs/py3_afni_tiny/lib/python3.12/site-packages/flask_cors/__init__.py
flask_cors version : 3.0.10
-------------------------------- env vars --------------------------------
PATH = /usr/local/cuda-12.2/bin:/usr/local/software/fsl/share/fsl/bin:/usr/local/software/fsl/share/fsl/bin:/usr/local/cuda-12.2/bin:/usr/local/software/fsl/share/fsl/bin:/usr/local/software/fsl/share/fsl/bin:/home/sdc/miniconda3/envs/py3_afni_tiny/bin:/home/sdc/miniconda3/condabin:/home/sdc/.local/bin:/home/sdc/bin:/usr/local/cuda-12.2/bin:/usr/local/software/fsl/share/fsl/bin:/usr/local/software/fsl/share/fsl/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/home/sdc/abin/afni:/opt/puppetlabs/bin:/home/sdc/abin/afni:/home/sdc/abin
PYTHONPATH =
R_LIBS = /home/sdc/R
LD_LIBRARY_PATH =
DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =
CONDA_SHLVL = 2
CONDA_DEFAULT_ENV = py3_afni_tiny
----------------------------- eval dot files -----------------------------
----------- AFNI $HOME files -----------
.afnirc : found
.sumarc : found
.afni/help/all_progs.COMP : found
--------- shell startup files ----------
-- good: .tcshrc seems to contain 'source .cshrc'
-- considered operations: path, apsearch
-- note: followers should not need edits, so edit flags should be 0
(have 1 follower(s), which can be ignored)
dot file test : want 3 modifications across 3 files:
file path flatdir apsearch follower
--------------- ---- ------- -------- --------
.cshrc 0 0 1 0
.tcshrc 0 0 0 1
.bashrc 1 0 1 0
------------------------------ data checks -------------------------------
data dir : missing AFNI_data6
data dir : missing AFNI_demos
data dir : missing suma_demo
data dir : missing afni_handouts
atlas : found TT_N27+tlrc under /home/sdc/abin
------------------------------ OS specific -------------------------------
which dnf : /usr/bin/dnf
dnf version : 4.7.0
which yum : /usr/bin/yum
yum version : 4.7.0
========================= summary, please fix: =========================
* just be aware: login shell 'bash', but our code examples use 'tcsh'
* AFNI programs show FAILURE
* missing R packages (see rPkgsInstall)
* dot file test : want 3 modifications across 3 files:
* insufficient data for AFNI bootcamp
(see "Prepare for Bootcamp" on install pages)
Installing packages into ‘/home/sdc/R’
(as ‘lib’ is unspecified)
also installing the dependencies ‘fs’, ‘purrr’, ‘tidyr’, ‘stringi’, ‘callr’, ‘pkgload’, ‘processx’, ‘ps’, ‘broom’, ‘stringr’, ‘testthat’, ‘StanHeaders’, ‘RcppParallel’, ‘pkgbuild’, ‘pbkrtest’, ‘car’, ‘reshape2’, ‘nloptr’, ‘rstan’, ‘rstantools’, ‘bayesplot’, ‘bridgesampling’
trying URL 'http://cloud.r-project.org/src/contrib/fs_1.6.3.tar.gz'
Content type 'application/x-gzip' length 1185603 bytes (1.1 MB)
==================================================
downloaded 1.1 MB
trying URL 'http://cloud.r-project.org/src/contrib/purrr_1.0.2.tar.gz'
Content type 'application/x-gzip' length 220868 bytes (215 KB)
==================================================
downloaded 215 KB
trying URL 'http://cloud.r-project.org/src/contrib/tidyr_1.3.1.tar.gz'
Content type 'application/x-gzip' length 809058 bytes (790 KB)
==================================================
downloaded 790 KB
trying URL 'http://cloud.r-project.org/src/contrib/stringi_1.8.3.tar.gz'
Content type 'application/x-gzip' length 11917752 bytes (11.4 MB)
==================================================
downloaded 11.4 MB
trying URL 'http://cloud.r-project.org/src/contrib/callr_3.7.5.tar.gz'
Content type 'application/x-gzip' length 102852 bytes (100 KB)
==================================================
downloaded 100 KB
trying URL 'http://cloud.r-project.org/src/contrib/pkgload_1.3.4.tar.gz'
Content type 'application/x-gzip' length 78189 bytes (76 KB)
==================================================
downloaded 76 KB
trying URL 'http://cloud.r-project.org/src/contrib/processx_3.8.4.tar.gz'
Content type 'application/x-gzip' length 163983 bytes (160 KB)
==================================================
downloaded 160 KB
trying URL 'http://cloud.r-project.org/src/contrib/ps_1.7.6.tar.gz'
Content type 'application/x-gzip' length 129489 bytes (126 KB)
==================================================
downloaded 126 KB
trying URL 'http://cloud.r-project.org/src/contrib/broom_1.0.5.tar.gz'
Content type 'application/x-gzip' length 641849 bytes (626 KB)
==================================================
downloaded 626 KB
trying URL 'http://cloud.r-project.org/src/contrib/stringr_1.5.1.tar.gz'
Content type 'application/x-gzip' length 176599 bytes (172 KB)
==================================================
downloaded 172 KB
trying URL 'http://cloud.r-project.org/src/contrib/testthat_3.2.1.tar.gz'
Content type 'application/x-gzip' length 739745 bytes (722 KB)
==================================================
downloaded 722 KB
trying URL 'http://cloud.r-project.org/src/contrib/StanHeaders_2.32.6.tar.gz'
Content type 'application/x-gzip' length 2395238 bytes (2.3 MB)
==================================================
downloaded 2.3 MB
trying URL 'http://cloud.r-project.org/src/contrib/RcppParallel_5.1.7.tar.gz'
Content type 'application/x-gzip' length 1629119 bytes (1.6 MB)
==================================================
downloaded 1.6 MB
trying URL 'http://cloud.r-project.org/src/contrib/pkgbuild_1.4.4.tar.gz'
Content type 'application/x-gzip' length 48794 bytes (47 KB)
==================================================
downloaded 47 KB
trying URL 'http://cloud.r-project.org/src/contrib/pbkrtest_0.5.2.tar.gz'
Content type 'application/x-gzip' length 75295 bytes (73 KB)
==================================================
downloaded 73 KB
trying URL 'http://cloud.r-project.org/src/contrib/car_3.1-2.tar.gz'
Content type 'application/x-gzip' length 579829 bytes (566 KB)
==================================================
downloaded 566 KB
trying URL 'http://cloud.r-project.org/src/contrib/reshape2_1.4.4.tar.gz'
Content type 'application/x-gzip' length 37307 bytes (36 KB)
==================================================
downloaded 36 KB
trying URL 'http://cloud.r-project.org/src/contrib/nloptr_2.0.3.tar.gz'
Content type 'application/x-gzip' length 2219877 bytes (2.1 MB)
==================================================
downloaded 2.1 MB
trying URL 'http://cloud.r-project.org/src/contrib/rstan_2.32.6.tar.gz'
Content type 'application/x-gzip' length 1555968 bytes (1.5 MB)
==================================================
downloaded 1.5 MB
trying URL 'http://cloud.r-project.org/src/contrib/rstantools_2.4.0.tar.gz'
Content type 'application/x-gzip' length 99340 bytes (97 KB)
==================================================
downloaded 97 KB
trying URL 'http://cloud.r-project.org/src/contrib/bayesplot_1.11.1.tar.gz'
Content type 'application/x-gzip' length 4971186 bytes (4.7 MB)
==================================================
downloaded 4.7 MB
trying URL 'http://cloud.r-project.org/src/contrib/bridgesampling_1.1-2.tar.gz'
Content type 'application/x-gzip' length 1679600 bytes (1.6 MB)
==================================================
downloaded 1.6 MB
trying URL 'http://cloud.r-project.org/src/contrib/afex_1.3-1.tar.gz'
Content type 'application/x-gzip' length 3785869 bytes (3.6 MB)
==================================================
downloaded 3.6 MB
trying URL 'http://cloud.r-project.org/src/contrib/phia_0.3-1.tar.gz'
Content type 'application/x-gzip' length 545361 bytes (532 KB)
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downloaded 532 KB
trying URL 'http://cloud.r-project.org/src/contrib/lme4_1.1-35.1.tar.gz'
Content type 'application/x-gzip' length 2942848 bytes (2.8 MB)
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downloaded 2.8 MB
trying URL 'http://cloud.r-project.org/src/contrib/lmerTest_3.1-3.tar.gz'
Content type 'application/x-gzip' length 195633 bytes (191 KB)
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downloaded 191 KB
trying URL 'http://cloud.r-project.org/src/contrib/gamm4_0.2-6.tar.gz'
Content type 'application/x-gzip' length 14969 bytes (14 KB)
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downloaded 14 KB
trying URL 'http://cloud.r-project.org/src/contrib/data.table_1.15.2.tar.gz'
Content type 'application/x-gzip' length 5386087 bytes (5.1 MB)
==================================================
downloaded 5.1 MB
trying URL 'http://cloud.r-project.org/src/contrib/brms_2.21.0.tar.gz'
Content type 'application/x-gzip' length 4922418 bytes (4.7 MB)
==================================================
downloaded 4.7 MB
* installing *source* package ‘fs’ ...
** package ‘fs’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 8.5.0 20210514 (Red Hat 8.5.0-20)’
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c init.cc -o init.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c id.cc -o id.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c utils.cc -o utils.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c file.cc -o file.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c path.cc -o path.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c getmode.cc -o getmode.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c link.cc -o link.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fs.cc -o fs.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dir.cc -o dir.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c error.cc -o error.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c unix/getmode.cc -o unix/getmode.o
gcc -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bsd/setmode.c -o bsd/setmode.o
gcc -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bsd/strmode.c -o bsd/strmode.o
gcc -I"/usr/include/R" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bsd/reallocarray.c -o bsd/reallocarray.o
(cd libuv-1.44.2 \
&& CC="gcc" CPPFLAGS="-I/usr/local/include" CFLAGS="-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fpic -fvisibility=hidden -std=c99" AR="ar" RANLIB="ranlib" LDFLAGS="-Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld" ./configure --quiet)
/bin/sh: line 1: ./configure: Permission denied
make: *** [Makevars:31: libuv-1.44.2/Makefile] Error 126
ERROR: compilation failed for package ‘fs’
* removing ‘/home/sdc/R/fs’
* installing *source* package ‘purrr’ ...
** package ‘purrr’ successfully unpacked and MD5 sums checked
** using staged installation
ERROR: 'configure' exists but is not executable -- see the 'R Installation and Administration Manual'
* removing ‘/home/sdc/R/purrr’
* installing *source* package ‘stringi’ ...
** package ‘stringi’ successfully unpacked and MD5 sums checked
** using staged installation
ERROR: 'configure' exists but is not executable -- see the 'R Installation and Administration Manual'
* removing ‘/home/sdc/R/stringi’
* installing *source* package ‘ps’ ...
** package ‘ps’ successfully unpacked and MD5 sums checked
** using staged installation
ERROR: 'configure' exists but is not executable -- see the 'R Installation and Administration Manual'
* removing ‘/home/sdc/R/ps’
* installing *source* package ‘RcppParallel’ ...
** package ‘RcppParallel’ successfully unpacked and MD5 sums checked
** using staged installation
ERROR: 'configure' exists but is not executable -- see the 'R Installation and Administration Manual'
* removing ‘/home/sdc/R/RcppParallel’
* installing *source* package ‘data.table’ ...
** package ‘data.table’ successfully unpacked and MD5 sums checked
** using staged installation
ERROR: 'configure' exists but is not executable -- see the 'R Installation and Administration Manual'
* removing ‘/home/sdc/R/data.table’
ERROR: dependency ‘ps’ is not available for package ‘processx’
* removing ‘/home/sdc/R/processx’
ERROR: dependency ‘stringi’ is not available for package ‘stringr’
* removing ‘/home/sdc/R/stringr’
ERROR: dependency ‘RcppParallel’ is not available for package ‘StanHeaders’
* removing ‘/home/sdc/R/StanHeaders’
ERROR: dependency ‘RcppParallel’ is not available for package ‘rstantools’
* removing ‘/home/sdc/R/rstantools’
ERROR: dependencies ‘purrr’, ‘stringr’ are not available for package ‘tidyr’
* removing ‘/home/sdc/R/tidyr’
ERROR: dependency ‘processx’ is not available for package ‘callr’
* removing ‘/home/sdc/R/callr’
ERROR: dependency ‘stringr’ is not available for package ‘reshape2’
* removing ‘/home/sdc/R/reshape2’
ERROR: dependency ‘stringr’ is not available for package ‘bridgesampling’
* removing ‘/home/sdc/R/bridgesampling’
ERROR: dependencies ‘purrr’, ‘stringr’, ‘tidyr’ are not available for package ‘broom’
* removing ‘/home/sdc/R/broom’
ERROR: dependencies ‘callr’, ‘processx’ are not available for package ‘pkgbuild’
* removing ‘/home/sdc/R/pkgbuild’
ERROR: dependency ‘reshape2’ is not available for package ‘bayesplot’
* removing ‘/home/sdc/R/bayesplot’
ERROR: dependencies ‘fs’, ‘pkgbuild’ are not available for package ‘pkgload’
* removing ‘/home/sdc/R/pkgload’
ERROR: dependencies ‘StanHeaders’, ‘RcppParallel’, ‘pkgbuild’ are not available for package ‘rstan’
* removing ‘/home/sdc/R/rstan’
ERROR: dependencies ‘callr’, ‘pkgload’, ‘processx’, ‘ps’ are not available for package ‘testthat’
* removing ‘/home/sdc/R/testthat’
ERROR: dependencies ‘rstan’, ‘rstantools’, ‘bayesplot’, ‘bridgesampling’ are not available for package ‘brms’
* removing ‘/home/sdc/R/brms’
ERROR: dependency ‘testthat’ is not available for package ‘nloptr’
* removing ‘/home/sdc/R/nloptr’
ERROR: dependency ‘nloptr’ is not available for package ‘lme4’
* removing ‘/home/sdc/R/lme4’
ERROR: dependencies ‘lme4’, ‘broom’ are not available for package ‘pbkrtest’
* removing ‘/home/sdc/R/pbkrtest’
ERROR: dependency ‘lme4’ is not available for package ‘lmerTest’
* removing ‘/home/sdc/R/lmerTest’
ERROR: dependency ‘lme4’ is not available for package ‘gamm4’
* removing ‘/home/sdc/R/gamm4’
ERROR: dependencies ‘pbkrtest’, ‘lme4’ are not available for package ‘car’
* removing ‘/home/sdc/R/car’
ERROR: dependencies ‘lme4’, ‘pbkrtest’, ‘lmerTest’, ‘car’, ‘reshape2’ are not available for package ‘afex’
* removing ‘/home/sdc/R/afex’
ERROR: dependency ‘car’ is not available for package ‘phia’
* removing ‘/home/sdc/R/phia’
The downloaded source packages are in
‘/tmp/RtmpWbpxP9/downloaded_packages’
++ Note: @ 13:38:41
This package has been installed on the computer: afex
This package has been installed on the computer: phia
This package has been installed on the computer: lme4
This package has been installed on the computer: lmerTest
This package has been installed on the computer: gamm4
This package has been installed on the computer: data.table
This package has been installed on the computer: brms
There were 29 warnings (use warnings() to see them)
Thanks,
Eddie