Dear @闽乐 ,

In the new version, you can access the control parameters for the visual model via the Inspector. For that, simply select the Adenita visual model and open the Inspector - you can right-click on the Adenita visual model and choose Inspect in the context menu.

See: User guide - Inspecting

Dear @Elsaid ,

This happens because of the Wayland display server on Ubuntu. You can try specifying another display server.

If you launch SAMSON from a terminal, then you could first specify the environment variable QT_QPA_PLATFORM to use the Xorg display server (X11):
export QT_QPA_PLATFORM=xcb

Then start SAMSON in the same terminal. Note, SAMSON is installed in your home directory ~/OneAngstrom/SAMSON-Application/4.0.0/Binaries, you can try starting ./SAMSON-Launcher.sh

If this works, you can try disabling Wayland on your system, for that you will need sudo privileges:

Disable Wayland by uncommenting WaylandEnable=false in the /etc/gdm3/custom.conf Add QT_QPA_PLATFORM=xcb in your ~/.bashrc file.

You might need to restart either the OS or the terminal.

You can check whether your system uses Wayland or X11 by running the following command in the terminal:
echo $XDG_SESSION_TYPE

Dear 闽乐 ,

We have fixed some possible issues in Adenita - it should be updated automatically for you. Could you please check whether it works for you?

Hello,

Although I have re-install Ubuntu with 200GB mounted in /, it still stoped around 29

When I run %df -l, it showed below

Filesystem 1K-blocks Used Available Use% Mounted on
udev 131770300 0 131770300 0% /dev
tmpfs 26361104 2888 26358216 1% /run
/dev/nvme0n1p2 191197068 11936596 169478456 7% /
tmpfs 131805512 46716 131758796 1% /dev/shm
tmpfs 5120 4 5116 1% /run/lock
tmpfs 131805512 0 131805512 0% /sys/fs/cgroup
/dev/loop0 9216 9216 0 100% /snap/canonical-livepatch/132
/dev/loop2 289280 289280 0 100% /snap/pymol-oss/98
/dev/loop1 113280 113280 0 100% /snap/core/12834
/dev/loop3 33152 33152 0 100% /snap/snapd/12704
/dev/loop4 63488 63488 0 100% /snap/core20/1405
/dev/loop5 66688 66688 0 100% /snap/gtk-common-themes/1515
/dev/loop6 254848 254848 0 100% /snap/gnome-3-38-2004/99
/dev/loop7 56832 56832 0 100% /snap/core18/2128
/dev/loop8 224256 224256 0 100% /snap/gnome-3-34-1804/72
/dev/nvme0n1p3 758522328 506548 719415232 1% /home
/dev/nvme0n1p1 9755312 5384 9749928 1% /boot/efi
/dev/nvme1n1p1 960379920 77856 911447640 1% /home2
/dev/loop9 52224 52224 0 100% /snap/snap-store/547
tmpfs 26361100 20 26361080 1% /run/user/125
tmpfs 26361100 44 26361056 1% /run/user/1000

I think it is not a space problem though, I don't know how to solve this problems.

please help,

Dear Elsaid,

we just released an update of the editors which makes it possible to use the current selection to build. This should make it easier to build any polymer you want by repeatedly adding larger and larger groups.

When using the Rectangle selection editor (the default editor, shortcut R), show the context menu (either by right-clicking in the viewport, right-clicking in the Document view, or clicking the green selection widget in the Document view). The third context menu action is Use selection to build:
0_1644692016713_e83ed7a6-57d6-44ce-99d0-73bb958e632c-image.png

Clicking this action automatically switches to the Add editor ands use the selection as a building fragment:
0_1644692230894_100a0c07-d9ca-47c3-9a78-4f6e322c4ad1-image.png

The Use selection to build action is also available in the context menu when the Add editor (shortcut A), Edit bonds editor (shortcut B) and Edit charges editor (shortcut C) are active. Here it is for example in the Add editor:
0_1644692355053_01b3ea45-9fe8-4584-8676-2fcb433572e6-image.png

Best regards,

The SAMSON team at OneAngstrom

Dear @Artyom ,

The file is loaded ok. The model and the selection (in orange) are partially hidden by the Fog effect. You can switch off the Fog effect in the Visualization menu > Effects > Fog or modify the Fog parameters in the Preferences (Ctrl/Cmd + K) > Rendering > Fog - set the far distance to 100 A, for example.

You can also check out the User guide: Preferences and User guide: Visualizing documentation.

Dear @Oisin ,

Covalent bonds are created based on the interatomic distances. Maybe the atoms are placed too far from each other? Could you please check the distance between atoms in your system - you can do it using the Measure editor by clicking on two atoms consecutively. Could you please attach a .cif file in which you experience the problem such that we could check it.

By the way, are you referring to .cif for biomolecules (mmcif/PDBx format) or .cif for crystals?

@martin-1

Dear Martin,

Thanks for your feedback. It appears you’re on a very specific machine as most users install SAMSON within minutes without any issues on Windows Linux or Mac in standard directories. Please contact the developers at contact@samson-connect.net as indicated in the automated email you received about installation.

We’re happy you think SAMSON is looking good too :).

Best

@aaa Thank you for reporting your solution here!

Hello, could you please tell us which graphics card you have? This seems to indicate a GPU issue.

Hello,

The issue is that SAMSON was installed as Administor. Can you please try to activate User Access Control (UAC) so that Windows does not install SAMSON as admin? Here's a link about how to do that: https://www.technipages.com/windows-enable-disable-user-account-control-uac

Please set UAC to e.g. "Always notify" (you can set it back to the previous setting afterwards).

0_1586188022427_b58888db-0b85-4f3f-8459-6d51649a09ab-image.png

Then, please restart your computer, and install SAMSON again.

Please let me know how this goes.

Thanks,

Stephane

Hello @Prokop ,

To connect two atoms with a bond, use the Add editor: press on the first atom and draw a bond to the second one and then release. Please see the gif below:
0_1583572262919_Connecting with a bond.gif

@shozeb Here is the process to uninstall SAMSON :

delete : rm -rf ~/.local/share/OneAngstrom/
delete : rm -rf ~/OneAngstrom/
delete : rm -rf ~/Documents/OneAngstrom/
delete : rm -rf ~/.config/OneAngstrom/
delete : rm -rf ~/.config/NANO-D (if exists)

After that you may try to reinstall SAMSON as described in the documentation.

Don't hesitate to contact us again if the issue is not solved. Users are our priority.

Jocelyn

Dear @Tadija
This just means that SAMSON was not able to get the name of the GPU but it should have detected it properly. Does SAMSON work properly for you or you experience some problems with graphics?

Dear @Radoslaw ,
We have fixed an issue in SAMSON which was causing a problem with OpenGL context on Intel integrated graphics processors. We hope it might as well resolve the issue you had and we would be grateful if you could try re-installing SAMSON to check whether it fixes it.

Dear @Ivan ,
Thanks to issues raised on the forum, we have fixed the issue in SAMSON causing problems with the viewport when using Intel integrated graphics processor. This issue might have been causing the problem you have posted in this thread. The new installation of SAMSON should resolve the issue.

Hello @Robert ,
Thanks to your feedback, we have fixed the issue in SAMSON when using Intel integrated graphics processor. You can try installing SAMSON.

Installation is done.

Hello, could you please contact us by email (please reply to the registration email) so we can see what we can do?

Thanks!

The SAMSON team

Sorry about the delay. Your academic email ID has been confirmed and you now have access to academic elements.