cmake error about chaste

[fcooper8472]

Hi @lolsenkettle, I will need some more information to be able to help. It looks as though the problem is that HDF5 was not detected by CMake.

Can I ask:

1. Which operating system are you using?
2. Have you followed one of the install guides here: https://chaste.github.io/docs/installguides/ ?

[lolsenkettle]

I am trying to install on ubuntu 22.04.4 jammy version. I followed the instructions on this page: https://chaste.github.io/docs/installguides/ubuntu-package/

I installed latest version of chaste 2024.1. I then followed the instructions on this page: https://chaste.github.io/docs/user-guides/cmake-first-run/

These are the screenshots of the error message

[fcooper8472]

Hi @lolsenkettle, apologies for the delay on this.

If you have followed these steps of the installation instructions:

sudo apt update
sudo apt install chaste-dependencies

then you should have HDF5 installed in a standard location.

Just to verify that it is installed correctly, please could you run:

dpkg -l | grep hdf5

and reply with the output of that?

[lolsenkettle]

This is the output:

lolsenkettle@lolsenkettle-ThinkPad-L390:~$ sudo apt install chaste-dependencies
Reading package lists... Done
Building dependency tree... Done
Reading state information... Done
chaste-dependencies is already the newest version (2022.04.11).
0 to upgrade, 0 to newly install, 0 to remove and 7 not to upgrade.

lolsenkettle@lolsenkettle-ThinkPad-L390:~$ dpkg -l grep hdf5
dpkg-query: no packages found matching hdf5
Desired=Unknown/Install/Remove/Purge/Hold
| Status=Not/Inst/Conf-files/Unpacked/halF-conf/Half-inst/trig-aWait/Trig-pend
|/ Err?=(none)/Reinst-required (Status,Err: uppercase=bad)
||/ Name Version Architecture Description
+++-==============-============-============-=================================
ii grep 3.7-1build1 amd64 GNU grep, egrep and fgrep

THis is the output from sudo apt update:

sudo apt update
[sudo] password for lolsenkettle:
Hit:1 http://au.archive.ubuntu.com/ubuntu jammy InRelease
Ign:2 https://chaste.github.io/ubuntu jammy/ InRelease
Hit:3 http://au.archive.ubuntu.com/ubuntu jammy-updates InRelease
Hit:4 http://au.archive.ubuntu.com/ubuntu jammy-backports InRelease
Hit:5 https://packages.microsoft.com/repos/ms-teams stable InRelease
Hit:6 https://dl.google.com/linux/chrome/deb stable InRelease
Hit:7 https://chaste.github.io/ubuntu jammy/ Release
Get:8 http://archive.ubuntu.com/ubuntu bionic InRelease [242 kB]
Get:9 http://security.ubuntu.com/ubuntu jammy-security InRelease [129 kB]
Hit:11 https://www.synaptics.com/sites/default/files/Ubuntu stable InRelease
Hit:12 http://security.ubuntu.com/ubuntu focal-security InRelease
Err:8 http://archive.ubuntu.com/ubuntu bionic InRelease
The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 3B4FE6ACC0B21F32
Get:13 http://archive.ubuntu.com/ubuntu bionic-security InRelease [102 kB]
Err:13 http://archive.ubuntu.com/ubuntu bionic-security InRelease
The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 3B4FE6ACC0B21F32
Get:14 http://archive.ubuntu.com/ubuntu bionic-updates InRelease [102 kB]
Err:14 http://archive.ubuntu.com/ubuntu bionic-updates InRelease
The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 3B4FE6ACC0B21F32
Reading package lists... Done
W: GPG error: http://archive.ubuntu.com/ubuntu bionic InRelease: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 3B4FE6ACC0B21F32
E: The repository 'http://archive.ubuntu.com/ubuntu bionic InRelease' is not signed.
N: Updating from such a repository can't be done securely, and is therefore disabled by default.
N: See apt-secure(8) manpage for repository creation and user configuration details.
W: GPG error: http://archive.ubuntu.com/ubuntu bionic-security InRelease: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 3B4FE6ACC0B21F32
E: The repository 'http://archive.ubuntu.com/ubuntu bionic-security InRelease' is not signed.
N: Updating from such a repository can't be done securely, and is therefore disabled by default.
N: See apt-secure(8) manpage for repository creation and user configuration details.
W: GPG error: http://archive.ubuntu.com/ubuntu bionic-updates InRelease: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 3B4FE6ACC0B21F32
E: The repository 'http://archive.ubuntu.com/ubuntu bionic-updates InRelease' is not signed.
N: Updating from such a repository can't be done securely, and is therefore disabled by default.
N: See apt-secure(8) manpage for repository creation and user configuration details.

[lolsenkettle]

Hi @lolsenkettle, I will need some more information to be able to help. It looks as though the problem is that HDF5 was not detected by CMake.

Can I ask:

1. Which operating system are you using?
2. Have you followed one of the install guides here: https://chaste.github.io/docs/installguides/ ?

I am trying to install on ubuntu 22.04.4 jammy version. I followed the instructions on this page: https://chaste.github.io/docs/installguides/ubuntu-package/

I installed latest version of chaste 2024.1. I then followed the instructions on this page: https://chaste.github.io/docs/user-guides/cmake-first-run/