Re: [AMBER] Amber20 installation error on Centos 7

From: David A Case <>
Date: Fri, 24 Dec 2021 09:16:25 -0500

On Thu, Dec 23, 2021, Suguna Sakkiah wrote:
>Thanks for your suggestions. Changed the directory to /data/amber20/test
>and run the make test.serial from the Root login.

>make[2]: Entering directory `/data/Amber/amber20/test/sanderapi'
>Testing the Fortran API
>/opt/miniconda3/bin/x86_64-conda-linux-gnu-gfortran -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /opt/miniconda3/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/ambertools_1626970347023/work=/usr/local/src/conda/ambertools-21.4 -fdebug-prefix-map=/opt/miniconda3=/usr/local/src/conda-prefix -Wall -Wno-tabs -Wno-unused-function -ffree-line-length-none -Wno-unused-dummy-argument -Wno-unused-variable -I/opt/miniconda3///include -L/opt/miniconda3///lib test.F90 -o testf -lsander
>/opt/miniconda3/bin/../lib/gcc/x86_64-conda-linux-gnu/9.3.0/../../../../x86_64-conda-linux-gnu/bin/ld: /opt/miniconda3///lib/././././ undefined reference to `__fdelt_chk.GLIBC_2.15'

First: are you ever planning to use the Fortran API to sander? (This is
exceedingly rare). If not, you can ignore these errors.

Second, what is the result of typing "which gfortran" and "gfortran
--version"? It looks like you are using a miniconda version that was not
installed by Amber (since that would be located at

To get started better, find a file location in which you have write
privileges; do an initial install using the default run_cmake script. After
that, one can start adding features.

....good luck...dac

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Received on Fri Dec 24 2021 - 06:30:02 PST
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