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My name is Sina Booeshaghi a second year PhD student at Caltech and I built and designed the poseidon system (with the help of Eduardo Beltrame, Jase Gehring, D

by sinab 8y ago

My name is Sina Booeshaghi a second year PhD student at Caltech and I built and designed the poseidon system (with the help of Eduardo Beltrame, Jase Gehring, Dylan Bannon, and Lior Pachter) in the Pachter Lab. If you have any questions I'm happy to answer them!

kasbah 8y ago
Nice work. You (and others interested in open science hardware) should come join our community at http://openhardware.science http://openhardware.science.
- sinab 8y ago
  Thanks for the link! I'll check it out and send it to the other authors.
sbr464 8y ago
I was needing a fully digital (controlled) microscope stage and stand recently. I was suprised to find a lack of motorized stages compared to other items. It would be nice to have a modular stage so it could be used with different stands. Rotation and height adjustment would be nice as well. Have you came across anything similar? It seems like it would be trivial to build similar to your other designs.
- sinab 8y ago
  Ooo this could be a great extension of the current microscope system! The only thing I've found is this https://www.thingiverse.com/thing:2525155 https://www.thingiverse.com/thing:2525155 which while not motorized, allows for height adjustments. Consider making an issue (tagged improvement) on the GitHub page! https://github.com/pachterlab/poseidon https://github.com/pachterlab/poseidon
- munfred 8y ago
  I have been thinking about this problem for a while. I would like a cheap, open source, commercially available kit for xyz gantry systems. That's essentially what desktop CNC machines and 3D printers are and people hack them for all kinds of purposes. Unfortunately my current conclusion is that there is no solution that satisfies all 3 at the moment. Your best bet for building such a system is looking at cheap 3D printers and CNC machines, but it'll always be a little bit of a hack and extra work because you'll have to remove parts (hot end, drill bit..) and adapt something that was not designed with the intent of being entirely re-purposed. If anyone here knows of a xyz gantry system kit that satisfies all 3 (cheap, open source, commercially available) please let me know.
  - Ccecil 8y ago
    It would be fairly trivial to build. Basically, it is just a CoreXY 3d printer without the head. I have modified a small CNC mill/router to be used as a "paste printer" for printing frosting/ceramic (https://youtu.be/XwjnVzfl0wA https://youtu.be/XwjnVzfl0wA). Many people in the 3d printing community have done similar things with their printers. I would recommend something without a bed that moves in the XY direction. CoreXY designs would be great but there may be limitations on the carriage weight. In that case a gantry style cartesian printer would be suitable but with 2 Y motors to carry the X stage without skipping. Edit: Also, See Openbuilds.com there are many machines that fit what you are looking for.
    - munfred 8y ago
      Looking at openbuilds.com, in terms of functionality it definitely fits the bill, I'll look at the designs with care. I'd like to have a generic open source xyz gantry platform that I could just order on amazon for <$200 and tinker around with.
  - dekhn 8y ago
    i built a light microscope that could scan 96 well slides using a 3-axis stacked configuration of these linear actuators: https://openbuildspartstore.com/c-beam-xlarge-x-y-table-bundle/ https://openbuildspartstore.com/c-beam-xlarge-x-y-table-bund... and https://openbuildspartstore.com/c-beam-linear-actuator-bundle/ https://openbuildspartstore.com/c-beam-linear-actuator-bundl... I used RAMPS to control the steppers. not clear if it satisfies your open source criterion.
  - sbr464 8y ago
    Can you provide some links/example to your usage of a gantry system? I don't typically use that term, curious to your exact usage.
    - Ccecil 8y ago
      Gantry style as I use the term describes a machine that has 2 Y rails carrying an X rail. All rails are independently powered so each has a motor/drive and all of the rails are supported above the work area. There are several 3d printers that use this configuration but not all of them are necessarily the exact design I would use. Here is a couple videos of one I made using "PBC Linear SIMO stages" it uses 10 start, 25mm/turn leadscrews so it is a bit louder than normal printers. https://youtu.be/fQ9PoQIl7q4 https://youtu.be/fQ9PoQIl7q4 https://youtu.be/zG-eEfDkFBo https://youtu.be/zG-eEfDkFBo
sinab 8y ago
I should add that the GitHub page is here: https://github.com/pachterlab/poseidon https://github.com/pachterlab/poseidon
- justinclift 8y ago
  Thanks. Any chance of adding useful vendor neutral export formats for the repo? eg IGES or STEP? STL is alright for 3d printing, but not much else. IGES and STEP can be imported into most cad/cam tools, so should make it useful to a potentially wider audience. :)
  - sinab 8y ago
    Great suggestion! I’ll add those formats later today.
Ccecil 8y ago
Great work! I love seeing these openhardware projects becoming more common, especially in the medical/biomed areas. So many amazing things spawning directly from the RepRap project and community it makes me feel fortunate to have been a heavily active member of the community for the last 8 years. Opentrons is another machine you may want to look into. They make a machine for pipetting. They use control boards which come from another project I work very closely with (smoothieware/smoothieboard). Opensource moves so fast and changes the world so much it cannot be overstated. Freeing the knowledge is important to move our species as a whole into the future. I believe every person in tech should seriously at least consider releasing their work to the world without cost, there are so many advances which can be made if people just have the necessary information and tools.
- munfred 8y ago
  I actually mentioned the poseidon project to the CPO of Opentrons a few months ago, because it would be great to have these kits commercially available and I thought it was a perfect fit for Opentrons (the company). Understandably he said that at the time they really wanted to focus on developing the OT-2 and the conversation ended there. That being said the poseidon project is distributed under a BSD 2-Clause license [1] and I'd be happy to see someone bringing it to market. [1] https://github.com/pachterlab/poseidon/blob/release/LICENSE https://github.com/pachterlab/poseidon/blob/release/LICENSE
kreldjarn 8y ago
Thanks for fixing the espresso machine <3
- sinab 8y ago
  of course :)

by sinab 8y ago

kasbah 8y ago

Nice work. You (and others interested in open science hardware) should come join our community at http://openhardware.science http://openhardware.science.

sinab 8y ago
Thanks for the link! I'll check it out and send it to the other authors.

sbr464 8y ago

I was needing a fully digital (controlled) microscope stage and stand recently. I was suprised to find a lack of motorized stages compared to other items. It would be nice to have a modular stage so it could be used with different stands. Rotation and height adjustment would be nice as well. Have you came across anything similar? It seems like it would be trivial to build similar to your other designs.

sinab 8y ago
Ooo this could be a great extension of the current microscope system! The only thing I've found is this https://www.thingiverse.com/thing:2525155 https://www.thingiverse.com/thing:2525155 which while not motorized, allows for height adjustments. Consider making an issue (tagged improvement) on the GitHub page! https://github.com/pachterlab/poseidon https://github.com/pachterlab/poseidon
munfred 8y ago
I have been thinking about this problem for a while. I would like a cheap, open source, commercially available kit for xyz gantry systems. That's essentially what desktop CNC machines and 3D printers are and people hack them for all kinds of purposes. Unfortunately my current conclusion is that there is no solution that satisfies all 3 at the moment. Your best bet for building such a system is looking at cheap 3D printers and CNC machines, but it'll always be a little bit of a hack and extra work because you'll have to remove parts (hot end, drill bit..) and adapt something that was not designed with the intent of being entirely re-purposed. If anyone here knows of a xyz gantry system kit that satisfies all 3 (cheap, open source, commercially available) please let me know.
- Ccecil 8y ago
  It would be fairly trivial to build. Basically, it is just a CoreXY 3d printer without the head. I have modified a small CNC mill/router to be used as a "paste printer" for printing frosting/ceramic (https://youtu.be/XwjnVzfl0wA https://youtu.be/XwjnVzfl0wA). Many people in the 3d printing community have done similar things with their printers. I would recommend something without a bed that moves in the XY direction. CoreXY designs would be great but there may be limitations on the carriage weight. In that case a gantry style cartesian printer would be suitable but with 2 Y motors to carry the X stage without skipping. Edit: Also, See Openbuilds.com there are many machines that fit what you are looking for.
  - munfred 8y ago
    Looking at openbuilds.com, in terms of functionality it definitely fits the bill, I'll look at the designs with care. I'd like to have a generic open source xyz gantry platform that I could just order on amazon for <$200 and tinker around with.
- dekhn 8y ago
  i built a light microscope that could scan 96 well slides using a 3-axis stacked configuration of these linear actuators: https://openbuildspartstore.com/c-beam-xlarge-x-y-table-bundle/ https://openbuildspartstore.com/c-beam-xlarge-x-y-table-bund... and https://openbuildspartstore.com/c-beam-linear-actuator-bundle/ https://openbuildspartstore.com/c-beam-linear-actuator-bundl... I used RAMPS to control the steppers. not clear if it satisfies your open source criterion.
- sbr464 8y ago
  Can you provide some links/example to your usage of a gantry system? I don't typically use that term, curious to your exact usage.
  - Ccecil 8y ago
    Gantry style as I use the term describes a machine that has 2 Y rails carrying an X rail. All rails are independently powered so each has a motor/drive and all of the rails are supported above the work area. There are several 3d printers that use this configuration but not all of them are necessarily the exact design I would use. Here is a couple videos of one I made using "PBC Linear SIMO stages" it uses 10 start, 25mm/turn leadscrews so it is a bit louder than normal printers. https://youtu.be/fQ9PoQIl7q4 https://youtu.be/fQ9PoQIl7q4 https://youtu.be/zG-eEfDkFBo https://youtu.be/zG-eEfDkFBo

sinab 8y ago

I should add that the GitHub page is here: https://github.com/pachterlab/poseidon https://github.com/pachterlab/poseidon

justinclift 8y ago
Thanks. Any chance of adding useful vendor neutral export formats for the repo? eg IGES or STEP? STL is alright for 3d printing, but not much else. IGES and STEP can be imported into most cad/cam tools, so should make it useful to a potentially wider audience. :)
- sinab 8y ago
  Great suggestion! I’ll add those formats later today.

Ccecil 8y ago

Great work! I love seeing these openhardware projects becoming more common, especially in the medical/biomed areas. So many amazing things spawning directly from the RepRap project and community it makes me feel fortunate to have been a heavily active member of the community for the last 8 years. Opentrons is another machine you may want to look into. They make a machine for pipetting. They use control boards which come from another project I work very closely with (smoothieware/smoothieboard). Opensource moves so fast and changes the world so much it cannot be overstated. Freeing the knowledge is important to move our species as a whole into the future. I believe every person in tech should seriously at least consider releasing their work to the world without cost, there are so many advances which can be made if people just have the necessary information and tools.

munfred 8y ago
I actually mentioned the poseidon project to the CPO of Opentrons a few months ago, because it would be great to have these kits commercially available and I thought it was a perfect fit for Opentrons (the company). Understandably he said that at the time they really wanted to focus on developing the OT-2 and the conversation ended there. That being said the poseidon project is distributed under a BSD 2-Clause license [1] and I'd be happy to see someone bringing it to market. [1] https://github.com/pachterlab/poseidon/blob/release/LICENSE https://github.com/pachterlab/poseidon/blob/release/LICENSE

kreldjarn 8y ago

Thanks for fixing the espresso machine <3

sinab 8y ago
of course :)