Hello,

I am trying to run a preprocessing script but have run into the following error:

#Script is running (command trimmed):
3dSkullStrip -orig_vol -input ./__tt_head+orig -prefix ./__tt_head_ns
3dSkullStrip: error while loading shared libraries: libGLw.so.1: cannot open shared object file: No such file or directory
** ERROR: Could not strip skull

** ERROR - script failed

Here is my afni_proc.py:
# subject ID
subj_id='sub-05'


afni_proc.py -subj_id ${subj_id} \
-script rosef_proc \
-out_dir rosef_proc_output \
-dsets \
func/${subj_id}_run1+orig.HEAD \
func/${subj_id}_run2+orig.HEAD \
func/${subj_id}_run3+orig.HEAD \
func/${subj_id}_run4+orig.HEAD \
func/${subj_id}_run5+orig.HEAD \
func/${subj_id}_run6+orig.HEAD \
-do_block align despike tlrc \
-copy_anat anat/head+orig \
-tcat_remove_first_trs 22 \
-tlrc_base MNI152_T1_2009c+tlrc \
-test_stim_files no \
-volreg_align_to third \
-volreg_align_e2a \
-volreg_tlrc_warp \
-blur_size 6 \
-move_preproc_files \
-regress_stim_times func/05/cue.1D func/05/self_look_neu.1D func/05/self_look_neg.1D func/05/self_change_neg.1D func/05/other_look_neu.1D func/05/other_look_neg.1D func/05/other_change_neg.1D func/05/rate_aff.1D func/05/rate_diff.1D func/05/relax.1D func/05/self.1D func/05/other.1D \
-regress_stim_types AM1 times times times times times times times times AM1 AM1 AM1 \
-regress_basis_multi dmBLOCK 'BLOCK(7,1)' 'BLOCK(7,1)' 'BLOCK(7,1)' 'BLOCK(7,1)' 'BLOCK(7,1)' 'BLOCK(7,1)' 'BLOCK(3,1)' 'BLOCK(3,1)' dmBLOCK dmBLOCK dmBLOCK \
-regress_stim_labels cue self_look_neu self_look_neg self_change_neg other_look_neu other_look_neg other_change_neg rate_aff rate_diff relax self other \
-regress_local_times \
-regress_apply_mot_types basic \
-regress_censor_motion 0.3 \
-regress_censor_outliers 0.1 \
-regress_compute_fitts \
-regress_compute_tsnr yes \
-regress_opts_3dD \
-GOFORIT 5 \
-jobs 4 \
-bout \
-xsave \
-num_glt 6 \
-glt_label 1 ME_react \
-gltsym 'SYM: +self_look_neg +other_look_neg -self_look_neu -other_look_neu' \
-glt_label 2 ME_reapp \
-gltsym 'SYM: +self_change_neg +other_change_neg -self_look_neg -other_look_neg' \
-glt_label 3 ME_persp_set \
-gltsym 'SYM: +other -self' \
-glt_label 4 ME_persp \
-gltsym 'SYM: +other_look_neu +other_look_neg +other_change_neg -self_look_neu -self_look_neg -self_change_neg' \
-glt_label 5 INT_react_persp \
-gltsym 'SYM: +other_look_neg -other_look_neu -self_look_neg +self_look_neu' \
-glt_label 6 INT_reapp_persp \
-gltsym 'SYM: +other_change_neg -other_look_neg -self_change_neg +self_look_neg' \
-regress_run_clustsim yes \
-regress_est_blur_epits \
-regress_est_blur_errts


And here is the output from afni_system_checky.py -check all

afni_system_check.py -check_all
-------------------------------- general ---------------------------------
architecture: 64bit ELF
system: Linux
release: 3.10.0-957.el7.x86_64
version: #1 SMP Thu Oct 4 20:48:51 UTC 2018
distribution: Red Hat Enterprise Linux Server 7.6 Maipo
number of CPUs: 16
apparent login shell: bash
shell RC file: .bashrc (exists)

--------------------- AFNI and related program tests ---------------------
which afni : /cm/shared/apps/afni/20.2.19/afni
afni version : Precompiled binary linux_centos_7_64: Sep 27 2020
: AFNI_20.2.19 'Aulus Vitellius'
AFNI_version.txt : AFNI_20.2.19, linux_centos_7_64, Sep 27 2020
which python : /usr/bin/python
python version : 2.7.5
which R : /cm/shared/apps/R/3.6.2/bin/R
R version : R version 3.6.2 (2019-12-12) -- "Dark and Stormy Night"
which tcsh : /usr/bin/tcsh

instances of various programs found in PATH:
afni : 1 (/cm/shared/apps/afni/20.2.19/afni)
R : 1 (/cm/shared/apps/R/3.6.2/bin/R)
python : 1 (/usr/bin/python2.7)
python2 : 1 (/usr/bin/python2.7)
python3 : 1 (/usr/bin/python3.6)


testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : success
uber_subject.py : success
3dAllineate : success
3dRSFC : success
SurfMesh : success
3dClustSim : success
3dMVM : FAILURE
Error in dyn.load(ll) :
unable to load shared object '/cm/shared/apps/afni/20.2.19/R_io.so':
libR.so: cannot open shared object file: No such file or directory
Calls: source ... withVisible -> eval -> eval -> set_R_io -> dyn.load
Execution halted

checking for R packages...
rPkgsInstall -pkgs ALL -check : success

R RHOME : /cm/shared/apps/R/3.6.2/lib64/R

checking for $HOME files...
.afnirc : found
.sumarc : found
.afni/help/all_progs.COMP : found

------------------------------ python libs -------------------------------
** failed to load module PyQt4
-- PyQt4 is no longer needed for an AFNI bootcamp

** failed to load module matplotlib.pyplot
-- matplotlib.pyplot is not required, but is desirable

-------------------------------- env vars --------------------------------
PATH = /cm/shared/apps/afni/20.2.19:/cm/shared/apps/R/3.6.2/bin/:/cm/shared/tools/curl/7.68.0/bin/:/cm/shared/apps/openmpi/ib/4.0.2/bin:/cm/shared/compilers/gcc/9.2.0/bin:/cm/shared/apps/slurm/18.08.4/sbin:/cm/shared/apps/slurm/18.08.4/bin:/cm/local/apps/gcc/8.2.0/bin:/cm/local/apps/environment-modules/4.2.1//bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:/sbin:/usr/sbin:/cm/local/apps/environment-modules/4.2.1/bin:/opt/puppetlabs/bin:/opt/dell/srvadmin/bin:/home/nkako/.local/bin:/home/nkako/bin

PYTHONPATH =
R_LIBS =
LD_LIBRARY_PATH = /cm/shared/apps/afni/20.2.19:/cm/shared/apps/R/3.6.2/lib64:/cm/shared/tools/curl/7.68.0/lib:/cm/shared/apps/lapack/gcc/64/3.8.0:/cm/shared/apps/blas/gcc/3.8.0/lib64:/cm/shared/apps/openmpi/ib/4.0.2/lib:/cm/shared/compilers/gcc/9.2.0/lib:/cm/shared/compilers/gcc/9.2.0/lib64:/cm/shared/libraries/mpc/1.0.3/lib/:/cm/shared/apps/slurm/18.08.4/lib64/slurm:/cm/shared/apps/slurm/18.08.4/lib64:/cm/local/apps/gcc/8.2.0/lib:/cm/local/apps/gcc/8.2.0/lib64

DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =

------------------------------ 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 /cm/shared/apps/afni/20.2.19

------------------------------ OS specific -------------------------------
which yum : /usr/bin/yum
yum version : 3.4.3


========================= summary, please fix: =========================
* just be aware: login shell 'bash', but our code examples use 'tcsh'
* 'afni' executable is owned by root
* AFNI programs show FAILURE
* insufficient data for AFNI bootcamp

any help would be much appreciated, thank you!