No Java Runtime Environment(JRE) was found on this system.

Hi, I followed the following steps on centos 7 and end up in “No Java Runtime Environment (JRE) was found on this system”. Here are the steps:

sudo yum update && sudo yum install -y build-essential libssl-dev uuid-dev libgpgme11-dev squashfs-tools libseccomp-dev wget pkg-config git


wget https://dl.google.com/go/go1.12.7.linux-amd64.tar.gz

tar -C /usr/local -zxvf go1.12.7.linux-amd64.tar.gz

export PATH=$PATH:/usr/local/go/bin

source ~/.bashrc

git clone https://github.com/sylabs/singularity.git

cd singularity

yum install openssl-devel -y

yum install libuuid-devel -y

./mconfig
cd /root/singularity/builddir
make
make install

export PATH=$PATH:/root/singularity/builddir
export PATH=$PATH:/usr/local/bin

source ~/.bashrc

singularity help

cd
wget https://github.com/kaczmarj/neurodocker/files/3462171/singularity_recipe_neuro.txt
singularity build neurosing.sif singularity_recipe_neuro.txt

Here is the error

[gllmflndn]

@zswgzx - the new versions are listed in #319

For the JRE issue, this is due to the old R2010a MATLAB Runtime. There are some other compiled versions of SPM12 with more recent runtimes in the dev folder, I will try to document this soon and make it more official.

[gllmflndn]

For the moment, there is a version of SPM12 r7771 with R2019b that we use in SPM’s own Dockerfile. I don’t think all of the various options are yet directly available in neurodocker (see #394), could you edit the links in the Dockerfile created by neurodocker in the meantime?