Hello everybody
I just found the same problem presented in this thread and here I cannot
see it solved:
http://archive.ambermd.org/202106/0165.html
answering your questions:
1 (ls -l of amber.pip)
lrwxrwxrwx 1 ocs users 58 Sep 10 14:37
/sharelab/labapps/AMBER/CentOS-8/Amber20/bin/amber.pip ->
/sharelab/labapps/AMBER/CentOS-8/Amber20/miniconda/bin/pip
(empty link, /sharelab/labapps/AMBER/CentOS-8/Amber20/miniconda/bin/pip
des not exists)
2 (ls -l of miniconda dir) (long list here)
[ocs.mrb-39-118 Amber20]$ ls -l
/sharelab/labapps/AMBER/CentOS-8/Amber20/miniconda/bin/
total 73028
lrwxrwxrwx 1 ocs users 8 Sep 10 14:35 2to3 -> 2to3-3.9
-rwxrwxr-x 1 ocs users 170 Sep 10 14:12 2to3-3.9
-rwxrwxr-x 1 ocs users 253 Sep 10 14:13 activate
-rwxrwxr-x 1 ocs users 1136480 Dec 12 2018 assistant
-rwxrwxr-x 1 ocs users 38176 Oct 12 2020 brotli
-rwxrwxr-x 1 ocs users 97680 Apr 18 2020 bsdcat
-rwxrwxr-x 1 ocs users 809448 Apr 18 2020 bsdcpio
-rwxrwxr-x 1 ocs users 868464 Apr 18 2020 bsdtar
-rwxrwxr-x 1 ocs users 110256 Jul 15 2019 bunzip2
-rwxrwxr-x 1 ocs users 110256 Jul 15 2019 bzcat
lrwxrwxrwx 1 ocs users 6 Sep 10 14:36 bzcmp -> bzdiff
-rwxrwxr-x 1 ocs users 2140 Jul 15 2019 bzdiff
lrwxrwxrwx 1 ocs users 6 Sep 10 14:35 bzegrep -> bzgrep
lrwxrwxrwx 1 ocs users 6 Sep 10 14:35 bzfgrep -> bzgrep
-rwxrwxr-x 1 ocs users 2054 Jul 15 2019 bzgrep
-rwxrwxr-x 1 ocs users 110256 Jul 15 2019 bzip2
-rwxrwxr-x 1 ocs users 21064 Jul 15 2019 bzip2recover
lrwxrwxrwx 1 ocs users 6 Sep 10 14:36 bzless -> bzmore
-rwxrwxr-x 1 ocs users 1259 Jul 15 2019 bzmore
-rwxrwxr-x 1 ocs users 6326 Sep 10 14:12 c_rehash
-rwxrwxr-x 1 ocs users 35768 Dec 12 2018 canbusutil
lrwxrwxrwx 1 ocs users 3 Sep 10 14:36 captoinfo -> tic
-rwxrwxr-x 1 ocs users 299 Sep 10 14:13 chardetect
-rwxrwxr-x 1 ocs users 39552 Nov 9 2017 cjpeg
-rwxrwxr-x 1 ocs users 14288 Apr 29 2020 clear
-rwxrwxr-x 1 ocs users 580 Sep 10 14:13 conda
-rwxrwxr-x 1 ocs users 303 Sep 10 14:14 conda-build
-rwxrwxr-x 1 ocs users 305 Sep 10 14:14 conda-convert
-rwxrwxr-x 1 ocs users 303 Sep 10 14:14 conda-debug
-rwxrwxr-x 1 ocs users 305 Sep 10 14:14 conda-develop
-rwxrwxr-x 1 ocs users 217 Sep 10 14:13 conda-env
-rwxrwxr-x 1 ocs users 303 Sep 10 14:14 conda-index
-rwxrwxr-x 1 ocs users 305 Sep 10 14:14 conda-inspect
-rwxrwxr-x 1 ocs users 309 Sep 10 14:14 conda-metapackage
-rwxrwxr-x 1 ocs users 304 Sep 10 14:14 conda-render
-rwxrwxr-x 1 ocs users 306 Sep 10 14:14 conda-skeleton
-rwxrwxr-x 1 ocs users 303 Sep 10 14:12 cph
-rwxrwxr-x 1 ocs users 19800 Mar 18 09:19 curve_keygen
-rwxrwxr-x 1 ocs users 298 Sep 10 14:13 cygdb
-rwxrwxr-x 1 ocs users 319 Sep 10 14:13 cython
-rwxrwxr-x 1 ocs users 299 Sep 10 14:13 cythonize
-rwxrwxr-x 1 ocs users 20920 Oct 14 2020 dbus-cleanup-sockets
-rwxrwxr-x 1 ocs users 280640 Sep 10 14:14 dbus-daemon
-rwxrwxr-x 1 ocs users 34528 Sep 10 14:14 dbus-launch
-rwxrwxr-x 1 ocs users 35936 Oct 14 2020 dbus-monitor
-rwxrwxr-x 1 ocs users 20784 Oct 14 2020 dbus-run-session
-rwxrwxr-x 1 ocs users 40168 Oct 14 2020 dbus-send
-rwxrwxr-x 1 ocs users 35336 Oct 14 2020 dbus-test-tool
-rwxrwxr-x 1 ocs users 21232 Oct 14 2020
dbus-update-activation-environment
-rwxrwxr-x 1 ocs users 20400 Oct 14 2020 dbus-uuidgen
-rwxrwxr-x 1 ocs users 341 Sep 10 14:13 deactivate
-rwxrwxr-x 1 ocs users 38528 Apr 28 2020 derb
-rwxrwxr-x 1 ocs users 409320 Dec 12 2018 designer
-rwxrwxr-x 1 ocs users 34936 Nov 9 2017 djpeg
-rwxrwxr-x 1 ocs users 323 Sep 10 14:13 f2py
-rwxrwxr-x 1 ocs users 323 Sep 10 14:13 f2py3
-rwxrwxr-x 1 ocs users 323 Sep 10 14:13 f2py3.9
-rwxrwxr-x 1 ocs users 130 Sep 10 14:13 f90nml
-rwxrwxr-x 1 ocs users 34384 Mar 23 10:39 fax2ps
-rwxrwxr-x 1 ocs users 30072 Mar 23 10:39 fax2tiff
-rwxrwxr-x 1 ocs users 26000 Feb 4 2021 fc-cache
-rwxrwxr-x 1 ocs users 25624 Feb 4 2021 fc-cat
-rwxrwxr-x 1 ocs users 20520 Feb 4 2021 fc-conflist
-rwxrwxr-x 1 ocs users 20888 Feb 4 2021 fc-list
-rwxrwxr-x 1 ocs users 25320 Feb 4 2021 fc-match
-rwxrwxr-x 1 ocs users 20864 Feb 4 2021 fc-pattern
-rwxrwxr-x 1 ocs users 20696 Feb 4 2021 fc-query
-rwxrwxr-x 1 ocs users 20912 Feb 4 2021 fc-scan
-rwxrwxr-x 1 ocs users 25048 Feb 4 2021 fc-validate
-rwxrwxr-x 1 ocs users 6344 Oct 16 2018 fixqt4headers.pl
-rwxr-xr-x 1 ocs users 297 Sep 10 14:14 fonttools
-rwxrwxr-x 1 ocs users 5374 Sep 10 14:14 freetype-config
-rwxrwxr-x 1 ocs users 23160 Sep 10 14:14 gapplication
-rwxrwxr-x 1 ocs users 60944 Sep 10 14:14 gdbus
-rwxrwxr-x 1 ocs users 2117 Sep 10 14:14 gdbus-codegen
-rwxrwxr-x 1 ocs users 25936 Apr 28 2020 genbrk
-rwxrwxr-x 1 ocs users 21248 Apr 28 2020 gencfu
-rwxrwxr-x 1 ocs users 38936 Apr 28 2020 gencnval
-rwxrwxr-x 1 ocs users 41008 Apr 28 2020 gendict
-rwxrwxr-x 1 ocs users 148072 Apr 28 2020 genrb
-rwxrwxr-x 1 ocs users 115512 Sep 10 14:14 gio
-rwxrwxr-x 1 ocs users 22152 Aug 19 15:59 gio-querymodules
-rwxrwxr-x 1 ocs users 55768 Sep 10 14:14 glib-compile-resources
-rwxrwxr-x 1 ocs users 60944 Sep 10 14:14 glib-compile-schemas
-rwxrwxr-x 1 ocs users 41109 Aug 19 15:58 glib-genmarshal
-rwxrwxr-x 1 ocs users 5612 Sep 10 14:14 glib-gettextize
-rwxrwxr-x 1 ocs users 30801 Aug 19 15:58 glib-mkenums
-rwxrwxr-x 1 ocs users 17288 Aug 19 15:59 gobject-query
-rwxrwxr-x 1 ocs users 22320 Sep 10 14:14 gresource
-rwxrwxr-x 1 ocs users 33168 Sep 10 14:14 gsettings
-rwxrwxr-x 1 ocs users 58544 Jan 5 2021 gst-device-monitor-1.0
-rwxrwxr-x 1 ocs users 80240 Jan 5 2021 gst-discoverer-1.0
-rwxrwxr-x 1 ocs users 165120 Jan 5 2021 gst-inspect-1.0
-rwxrwxr-x 1 ocs users 105680 Jan 5 2021 gst-launch-1.0
-rwxrwxr-x 1 ocs users 151856 Jan 5 2021 gst-play-1.0
-rwxrwxr-x 1 ocs users 87672 Jan 5 2021 gst-stats-1.0
-rwxrwxr-x 1 ocs users 48712 Jan 5 2021 gst-typefind-1.0
-rwxrwxr-x 1 ocs users 32976 Aug 19 15:59 gtester
-rwxrwxr-x 1 ocs users 19095 Aug 19 15:58 gtester-report
-rwxrwxr-x 1 ocs users 22545 Sep 10 14:13 icu-config
-rwxrwxr-x 1 ocs users 20872 Apr 28 2020 icuinfo
lrwxrwxrwx 1 ocs users 7 Sep 10 14:35 idle3 -> idle3.9
-rwxrwxr-x 1 ocs users 168 Sep 10 14:12 idle3.9
-rwxrwxr-x 1 ocs users 63512 Apr 29 2020 infocmp
lrwxrwxrwx 1 ocs users 3 Sep 10 14:36 infotocap -> tic
-rwxrwxr-x 1 ocs users 309 Sep 10 14:14 iptest
-rwxrwxr-x 1 ocs users 309 Sep 10 14:14 iptest3
-rwxrwxr-x 1 ocs users 302 Sep 10 14:14 ipython
-rwxrwxr-x 1 ocs users 302 Sep 10 14:14 ipython3
-rwxrwxr-x 1 ocs users 43120 Nov 9 2017 jpegtran
-rwxrwxr-x 1 ocs users 46224 Apr 5 20:51 jpgicc
-rwxr-xr-x 1 ocs users 293 Sep 10 14:14 jsonschema
-rwxrwxr-x 1 ocs users 297 Sep 10 14:13 jupyter
-rwxrwxr-x 1 ocs users 311 Sep 10 14:14 jupyter-bundlerextension
-rwxr-xr-x 1 ocs users 303 Sep 10 14:14 jupyter-kernel
-rwxr-xr-x 1 ocs users 341 Sep 10 14:14 jupyter-kernelspec
-rwxrwxr-x 1 ocs users 297 Sep 10 14:13 jupyter-migrate
-rwxrwxr-x 1 ocs users 299 Sep 10 14:14 jupyter-nbconvert
-rwxrwxr-x 1 ocs users 298 Sep 10 14:14 jupyter-nbextension
-rwxrwxr-x 1 ocs users 297 Sep 10 14:14 jupyter-notebook
-rwxr-xr-x 1 ocs users 300 Sep 10 14:14 jupyter-run
-rwxrwxr-x 1 ocs users 302 Sep 10 14:14 jupyter-serverextension
-rwxrwxr-x 1 ocs users 302 Sep 10 14:13 jupyter-troubleshoot
-rwxr-xr-x 1 ocs users 332 Sep 10 14:14 jupyter-trust
-rwxrwxr-x 1 ocs users 184496 Dec 12 2018 lconvert
lrwxrwxrwx 1 ocs users 15 Sep 10 14:35 libpng-config ->
libpng16-config
-rwxrwxr-x 1 ocs users 2396 Sep 10 14:14 libpng16-config
-rwxrwxr-x 1 ocs users 1080616 Dec 12 2018 linguist
-rwxrwxr-x 1 ocs users 35424 Apr 5 20:51 linkicc
-rwxrwxr-x 1 ocs users 336968 Dec 12 2018 lrelease
-rwxrwxr-x 1 ocs users 632368 Dec 12 2018 lupdate
-rwxrwxr-x 1 ocs users 345400 Jul 30 16:57 lz4
lrwxrwxrwx 1 ocs users 3 Sep 10 14:36 lz4c -> lz4
lrwxrwxrwx 1 ocs users 3 Sep 10 14:35 lz4cat -> lz4
lrwxrwxrwx 1 ocs users 2 Sep 10 14:35 lzcat -> xz
lrwxrwxrwx 1 ocs users 6 Sep 10 14:36 lzcmp -> xzdiff
lrwxrwxrwx 1 ocs users 6 Sep 10 14:35 lzdiff -> xzdiff
lrwxrwxrwx 1 ocs users 6 Sep 10 14:35 lzegrep -> xzgrep
lrwxrwxrwx 1 ocs users 6 Sep 10 14:36 lzfgrep -> xzgrep
lrwxrwxrwx 1 ocs users 6 Sep 10 14:36 lzgrep -> xzgrep
lrwxrwxrwx 1 ocs users 6 Sep 10 14:35 lzless -> xzless
lrwxrwxrwx 1 ocs users 2 Sep 10 14:35 lzma -> xz
-rwxrwxr-x 1 ocs users 21216 Apr 16 2020 lzmadec
-rwxrwxr-x 1 ocs users 21128 Sep 10 14:12 lzmainfo
lrwxrwxrwx 1 ocs users 6 Sep 10 14:35 lzmore -> xzmore
-rwxrwxr-x 1 ocs users 75464 Apr 28 2020 makeconv
-rwxrwxr-x 1 ocs users 303 Sep 10 14:13 matplotlib
-rwxrwxr-x 1 ocs users 924832 Dec 12 2018 moc
-rwxrwxr-x 1 ocs users 8300 Sep 10 14:12 ncursesw6-config
-rwxr-xr-x 1 ocs users 324 Sep 10 14:12 normalizer
-rwxrwxr-x 1 ocs users 833296 Sep 2 16:12 openssl
-rwxrwxr-x 1 ocs users 144720 Aug 27 19:20 opj_compress
-rwxrwxr-x 1 ocs users 136472 Aug 27 19:20 opj_decompress
-rwxrwxr-x 1 ocs users 127488 Aug 27 19:20 opj_dump
-rwxrwxr-x 1 ocs users 25552 Mar 23 10:39 pal2rgb
-rwxrwxr-x 1 ocs users 187208 Sep 10 14:13 patchelf
-rwxrwxr-x 1 ocs users 2432 Sep 10 14:14 pcre-config
-rwxrwxr-x 1 ocs users 57056 Jun 23 21:50 pcregrep
-rwxrwxr-x 1 ocs users 83136 Jun 23 21:50 pcretest
-rwxrwxr-x 1 ocs users 52968 Dec 12 2018 pixeltool
-rwxrwxr-x 1 ocs users 58304 Apr 28 2020 pkgdata
-rwxrwxr-x 1 ocs users 296 Sep 10 14:13 pkginfo
-rwxrwxr-x 1 ocs users 19800 Apr 23 2019 png-fix-itxt
-rwxrwxr-x 1 ocs users 60440 Apr 23 2019 pngfix
-rwxrwxr-x 1 ocs users 25592 Mar 23 10:39 ppm2tiff
-rwxrwxr-x 1 ocs users 25984 Apr 5 20:51 psicc
-rwxrwxr-x 1 ocs users 300 Sep 10 14:13 py.test
lrwxrwxrwx 1 ocs users 8 Sep 10 14:35 pydoc -> pydoc3.9
lrwxrwxrwx 1 ocs users 8 Sep 10 14:36 pydoc3 -> pydoc3.9
-rwxrwxr-x 1 ocs users 153 Sep 10 14:12 pydoc3.9
-rwxr-xr-x 1 ocs users 294 Sep 10 14:14 pyftmerge
-rwxr-xr-x 1 ocs users 295 Sep 10 14:14 pyftsubset
-rwxr-xr-x 1 ocs users 295 Sep 10 14:14 pygmentize
-rwxrwxr-x 1 ocs users 140 Sep 10 14:14 pylupdate5
-rwxrwxr-x 1 ocs users 136 Sep 10 14:14 pyrcc5
-rwxrwxr-x 1 ocs users 300 Sep 10 14:13 pytest
lrwxrwxrwx 1 ocs users 9 Sep 10 14:36 python -> python3.9
lrwxrwxrwx 1 ocs users 9 Sep 10 14:35 python3 -> python3.9
lrwxrwxrwx 1 ocs users 16 Sep 10 14:36 python3-config ->
python3.9-config
-rwxrwxr-x 1 ocs users 15687904 Sep 10 14:12 python3.9
-rwxrwxr-x 1 ocs users 3669 Sep 10 14:12 python3.9-config
-rwxrwxr-x 1 ocs users 135 Sep 10 14:14 pyuic5
-rwxrwxr-x 1 ocs users 56736 Dec 12 2018 qcollectiongenerator
-rwxrwxr-x 1 ocs users 48504 Dec 12 2018 qdbus
-rwxrwxr-x 1 ocs users 192104 Dec 12 2018 qdbuscpp2xml
-rwxrwxr-x 1 ocs users 110968 Dec 12 2018 qdbusviewer
-rwxrwxr-x 1 ocs users 60512 Dec 12 2018 qdbusxml2cpp
-rwxrwxr-x 1 ocs users 1052208 Dec 12 2018 qdoc
-rwxrwxr-x 1 ocs users 5494856 Dec 12 2018 qgltf
-rwxrwxr-x 1 ocs users 151760 Dec 12 2018 qhelpconverter
-rwxrwxr-x 1 ocs users 23216 Dec 12 2018 qhelpgenerator
-rwxrwxr-x 1 ocs users 88880 Dec 12 2018 qlalr
-rwxrwxr-x 1 ocs users 23349704 Sep 10 14:14 qmake
-rwxrwxr-x 1 ocs users 56688 Dec 12 2018 qml
-rwxrwxr-x 1 ocs users 745440 Dec 12 2018 qmlcachegen
-rwxrwxr-x 1 ocs users 89968 Dec 12 2018 qmleasing
-rwxrwxr-x 1 ocs users 208592 Dec 12 2018 qmlimportscanner
-rwxrwxr-x 1 ocs users 170976 Dec 12 2018 qmllint
-rwxrwxr-x 1 ocs users 72608 Dec 12 2018 qmlmin
-rwxrwxr-x 1 ocs users 102640 Dec 12 2018 qmlplugindump
-rwxrwxr-x 1 ocs users 127000 Dec 12 2018 qmlprofiler
-rwxrwxr-x 1 ocs users 48656 Dec 12 2018 qmlscene
-rwxrwxr-x 1 ocs users 6312 Dec 12 2018 qmltestrunner
-rwxrwxr-x 1 ocs users 245648 Dec 12 2018 qscxmlc
-rwxrwxr-x 1 ocs users 389 Sep 10 14:14 qt.conf
-rwxrwxr-x 1 ocs users 44152 Dec 12 2018 qtattributionsscanner
-rwxrwxr-x 1 ocs users 57120 Dec 12 2018 qtdiag
-rwxrwxr-x 1 ocs users 23112 Dec 12 2018 qtpaths
-rwxrwxr-x 1 ocs users 23216 Dec 12 2018 qtplugininfo
-rwxrwxr-x 1 ocs users 1698424 Dec 12 2018 qwebengine_convert_dict
-rwxrwxr-x 1 ocs users 33632 Mar 23 10:39 raw2tiff
-rwxrwxr-x 1 ocs users 851024 Dec 12 2018 rcc
-rwxrwxr-x 1 ocs users 16264 Nov 9 2017 rdjpgcom
-rwxrwxr-x 1 ocs users 332168 Sep 10 14:14 repc
lrwxrwxrwx 1 ocs users 4 Sep 10 14:36 reset -> tset
-rwxrwxr-x 1 ocs users 3882464 Sep 28 2020 rg
-rwxrwxr-x 1 ocs users 435672 Dec 9 2020 sip
-rwxrwxr-x 1 ocs users 1588448 Jun 23 19:49 sqlite3
-rwxrwxr-x 1 ocs users 30301 Jun 18 2020 sqlite3_analyzer
-rwxrwxr-x 1 ocs users 49240 Oct 16 2018 syncqt.pl
-rwxrwxr-x 1 ocs users 14280 Apr 29 2020 tabs
lrwxrwxrwx 1 ocs users 8 Sep 10 14:35 tclsh -> tclsh8.6
-rwxrwxr-x 1 ocs users 19960 Jun 18 2020 tclsh8.6
-rwxrwxr-x 1 ocs users 88128 Apr 29 2020 tic
-rwxrwxr-x 1 ocs users 29776 Mar 23 10:39 tiff2bw
-rwxrwxr-x 1 ocs users 92168 Mar 23 10:39 tiff2pdf
-rwxrwxr-x 1 ocs users 66800 Mar 23 10:39 tiff2ps
-rwxrwxr-x 1 ocs users 29584 Mar 23 10:39 tiff2rgba
-rwxrwxr-x 1 ocs users 25544 Mar 23 10:39 tiffcmp
-rwxrwxr-x 1 ocs users 57360 Mar 23 10:39 tiffcp
-rwxrwxr-x 1 ocs users 123840 Mar 23 10:39 tiffcrop
-rwxrwxr-x 1 ocs users 25152 Mar 23 10:39 tiffdither
-rwxrwxr-x 1 ocs users 34352 Mar 23 10:39 tiffdump
-rwxrwxr-x 1 ocs users 30464 Mar 23 10:39 tiffinfo
-rwxrwxr-x 1 ocs users 29600 Mar 23 10:39 tiffmedian
-rwxrwxr-x 1 ocs users 25216 Mar 23 10:39 tiffset
-rwxrwxr-x 1 ocs users 25072 Mar 23 10:39 tiffsplit
-rwxrwxr-x 1 ocs users 49600 Apr 5 20:51 tificc
-rwxrwxr-x 1 ocs users 22472 Apr 29 2020 toe
-rwxrwxr-x 1 ocs users 22504 Apr 29 2020 tput
-rwxr-xr-x 1 ocs users 287 Sep 10 14:12 tqdm
-rwxrwxr-x 1 ocs users 45632 Apr 5 20:51 transicc
-rwxrwxr-x 1 ocs users 30672 Apr 29 2020 tset
-rwxr-xr-x 1 ocs users 292 Sep 10 14:14 ttx
-rwxrwxr-x 1 ocs users 487240 Dec 12 2018 uic
lrwxrwxrwx 1 ocs users 3 Sep 10 14:36 unlz4 -> lz4
lrwxrwxrwx 1 ocs users 2 Sep 10 14:36 unlzma -> xz
lrwxrwxrwx 1 ocs users 2 Sep 10 14:36 unxz -> xz
lrwxrwxrwx 1 ocs users 4 Sep 10 14:35 unzstd -> zstd
-rwxrwxr-x 1 ocs users 37520 Feb 1 2021 webpinfo
-rwxrwxr-x 1 ocs users 43000 Feb 1 2021 webpmux
lrwxrwxrwx 1 ocs users 7 Sep 10 14:35 wish -> wish8.6
-rwxrwxr-x 1 ocs users 20112 Jun 18 2020 wish8.6
-rwxrwxr-x 1 ocs users 16368 Nov 9 2017 wrjpgcom
-rwxrwxr-x 1 ocs users 2568888 Jun 3 07:35 x86_64-conda-linux-gnu-ld
lrwxrwxrwx 1 ocs users 25 Sep 10 14:36
x86_64-conda_cos6-linux-gnu-ld -> x86_64-conda-linux-gnu-ld
-rwxrwxr-x 1 ocs users 2340 Sep 10 14:13 xml2-config
-rwxrwxr-x 1 ocs users 27120 Jun 23 21:52 xmlcatalog
-rwxrwxr-x 1 ocs users 90048 Jun 23 21:52 xmllint
-rwxrwxr-x 1 ocs users 52392 Dec 12 2018 xmlpatterns
-rwxrwxr-x 1 ocs users 10608 Dec 12 2018 xmlpatternsvalidator
-rwxrwxr-x 1 ocs users 45720 May 24 11:44 xmlwf
-rwxrwxr-x 1 ocs users 99688 Sep 10 14:12 xz
lrwxrwxrwx 1 ocs users 2 Sep 10 14:35 xzcat -> xz
lrwxrwxrwx 1 ocs users 6 Sep 10 14:35 xzcmp -> xzdiff
-rwxrwxr-x 1 ocs users 21216 Apr 16 2020 xzdec
-rwxrwxr-x 1 ocs users 6633 Apr 16 2020 xzdiff
lrwxrwxrwx 1 ocs users 6 Sep 10 14:36 xzegrep -> xzgrep
lrwxrwxrwx 1 ocs users 6 Sep 10 14:35 xzfgrep -> xzgrep
-rwxrwxr-x 1 ocs users 5630 Apr 16 2020 xzgrep
-rwxrwxr-x 1 ocs users 1799 Apr 16 2020 xzless
-rwxrwxr-x 1 ocs users 2162 Apr 16 2020 xzmore
-rwxrwxr-x 1 ocs users 182640 Apr 1 00:09 zstd
lrwxrwxrwx 1 ocs users 4 Sep 10 14:35 zstdcat -> zstd
-rwxrwxr-x 1 ocs users 3869 Mar 2 2021 zstdgrep
-rwxrwxr-x 1 ocs users 30 Mar 2 2021 zstdless
lrwxrwxrwx 1 ocs users 4 Sep 10 14:35 zstdmt -> zstd
here you can find all the output from the cmake; make; make install:
http://bioinf.uab.es/ocs/MISC/amber_install_out.txt
If you look at line 346 you will see that the installation of
charset-normalizer-2.0.4 uninstalled pip-21.1.3-py39h06a4308_0
maybe this is it
on the other hand when I run make test.serial it ends like this:
==============================================================
Testing GB sander interface (samecoords w/out RDT)
PASSED
==============================================================
Testing PME sander interface
PASSED
==============================================================
Testing the Python LES API
/sharelab/labapps/AMBER/CentOS-8/Amber20//miniconda/bin/python test.py
Could not import sanderles. Skipping test
Could not import the compiled Python-sander interface. Make sure you
have the Python development libraries installed and that you have
sourced amber.sh or amber.cshmake[2]: Leaving directory
'/sharelab/labapps/AMBER/CentOS-8/Amber20/test/sanderlesapi'
make[1]: Leaving directory
'/sharelab/labapps/AMBER/CentOS-8/Amber20/test/sanderlesapi'
here the ouptut for make test.serial
http://bioinf.uab.es/ocs/MISC/tests_out.txt
my commands:
cmake ../amber20_src
-DCMAKE_INSTALL_PREFIX=/sharelab/labapps/AMBER/CentOS-8/Amber20
-DCOMPILER=GNU -DOPENMP=TRUE -DDOWNLOAD_MINICONDA=TRUE
-DMINICONDA_USE_PY3=TRUE -DINSTALL_TESTS=TRUE
make
make install
I'm in a CentOS 8 fully updated machine
thank you very much
OCS
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Received on Mon Sep 13 2021 - 04:00:02 PDT
