Thom Group Wiki - User contributions [en]

The Ten Git-mmandments

2022-09-02T14:44:50Z

Zz376:

Herein lies precious Git-related wisdom, do not disregard at your own convenience!

#'''Thou shalt NOT treat Git repositories like Google Drive'''.
#*Git repositories do not exist for you to backup all your files (e.g., cache, output and log files).
#*Do not be trigger happy with ```git add --all```.
#*Do not add whole directories.
#*Maintain a minimalistic mentality, i.e., carefully consider what files are important with the focus on successfully allowing the user to run your code.
#'''Thou shalt NOT include .pyc files, the entire __pycache__ folder and .DS_Store files.'''
#*Basically, you have been warned.
#'''Thou shalt NOT ignore .gitignore.'''
#*They do not exist for no reason, create one to satisfy the above rules.
#*Visit https://git-scm.com/docs/gitignore for more information on formatting one.
#*Do not skip the following (bad) example:
#::> Sometimes, you might want to code using an IDE on your personal computer, git push and then git pull onto a workstation to run the code.
#::> As expected, you run into an error, nano into the file with the error and make the necessary changes.
#::> The code now works and you happily git push from the workstation, with all your output and cached folders.
#'''Thou shalt NOT send a merge request with over 453 changed files - this is impossible to review!'''
#*Do not operate with the mentality of only submitting completed working code.
#*Do not forget that little and often with code review is better than the former.
#*Besides the mundane rationale of catching your mistakes and getting feedback quicker rather than letting than accumulate, it allows the reviewer to better track and follow your changes.
#'''Thou shalt NOT forget the concept and importance of source control.'''
#*This is a big one. Basically, when you are coding as a team, or if your work is derived from another user, or needs to be passed on to future users, you must consider code maintenance and management.
#*For example, as much as possible, do not explicitly include other people's code in your own repository, because when they update their code, you do not want to repeat the cloning or downloading process again, or have to sieve through all your and their code to find what has changed and needs to be updated. What you do want is to simply perform a ```git pull```. To that end, do not forget git submodules exist for a very good reason. See https://git-scm.com/book/en/v2/Git-Tools-Submodules.
#*Along those lines, you also do not want to edit someone else's code as much as possible.
#::> For example, say you import the python package phreeqpy that serves as a wrapper for phreeqc, which is a piece of software written in C that you wish to use.
#::> You quickly realise one of the files, ```phreeqpy_dll.py``` is causing errors, and needs to be modified to suit your needs.
#::> You might wonder "Wouldn't the easiest solution be to make a new repository for phreeqpy, replace the _dll file with a newly edited (by you) _dll2 file and adding it as a submodule (*gasps* something about explicitly including someone else's code)? Clearly, the _dll2 file contains everything required to perform the job!"
#::> However, what you do not realise is that making a new repository means having to deal with the compilation of phreeqc underneath it (which is the job of phreeqpy), which will result in more work further down the road because you have effectively, albeit inadvertently, involved yourself in managing phreeqpy, and all the hard work required to make it interface with phreeqc, which is not your job.
#::> Indeed, do not rule out the possibility that it will probably be much less painful to make a single wrapper _dll2 file, and have '''your''' own module in '''your''' own repository import whatever is needed from the original '''unedited''' _dll file and extend its function by also importing '''your''' _dll2 file.
#::> This segregation of '''your''' and '''their unedited''' code makes life way easier since you effectively only have to deal with '''your''' own code.
#*As a maxim, you do not ever want to add a file to a repository that you did not create.
#'''Thou shalt NOT think once when having to modify someone else's code.'''
#*The previous rule does not consider the case when you have no choice but to modify someone else's code in order to make it work. This might happen when you are trying to integrate their software with other pieces of software, and a mere wrapper function will not suffice. By the way, side tracking a little, do not use the horrible shortcut of writing code to convert a .py file to .txt file, edit it like a text file before converting it back to a .py file and importing it. Do not forget wrapper functions exist for a reason. Moreover, when importing user-defined variables into your program, please do not format it as a text file and execute it like a .py file. It makes future integration and extension an absolute nightmare. Do not forget the literal eval function exists too.
#*Moving on, what you can do here is:
#::> Create a new repository separate from your '''present repository'''.
#::> Branch the (target) person's project into your new repository. The term for such a "cross-repository" branch is fork.
#::> Inside your new repository, make a '''new branch''' where you make your modifications to their code as git commits with a merge request back into the ```main``` (of your new repository) at the end.
#::> If you are in the mood, you can even make a ```pull request``` back to the (target) person's project branch with your new code.
#::> But considering your own needs first, you can then add this '''new branch''' as a submodule in your '''present repository'''.
#::> Again, do not forget that untangling other people's code is a horrible process, so you want to keep yours and their code as separate as possible.
#'''Thou shalt NOT include autogenerated files in your git repository.'''
#*Do not forget that autogenerated files, e.g., .o and .d files, will change when you recompile them even if their source files have not.
#*Instead, add the compilation instructions to your README and leave that to the user. Again, do not forget ```make``` files exist.
#'''Thou shalt NOT forget to test your code on a workstation.'''
#*It is not a matter of making sure your code runs on a specific workstation, but to remember that the end user will have a different machine with a different setup.
#*For example, your code may require a compiler GLIBC >= 2.29 that in turn requires Ubuntu >=20.04. A quick check will reveal, as of August 2022, that most machines are running an older version.
#*Therefore, do not forget to include a detailed list of instructions and system requirements when asking someone else to review your code.
#*You do not want your reviewer (and therefore you) to spend ages just to debug software requirement related errors.
#*As such, do not miss an opportunity to test your code on a 'fresh' machine. It may be helpful to even record the system specifications when your code runs successfully to aid with that.
#'''Thou shalt NOT be afraid to clarify git related concepts as early as possible.'''
#*Especially when it is your first time using Git.
#'''Thou shalt NOT forget to share your mistakes and helpful pointers with your colleagues.'''
#*We certainly do not wish to entertain the situation of multiple people making the same mistakes with the same reviewer.

"Do not" counter: 37

Computer and Storage List

2022-05-03T15:26:09Z

Zz376: /* Computer List */ discovered a hidden GPU

=Computer List=
{| class="wikitable"
!name
!office
!user
!cores
!processor
!RAM
!OS
!Video Ports
!Displays
!Q-Chem?
|-
|carpathia
|379
| Tests
|6
|Intel(R) Core(TM) i7-3930K CPU @ 3.20GHz
|32GB
|Ubuntu 18.04.5
|-
|liminal
|379
|Alex
|6
|Intel(R) Core(TM) i7-7800X CPU @ 3.50GHz
|64GB
|Ubuntu 18.04.5
|
|
|For FCIDUMPS: export QC=qclocal; . ~ajwt3/code/qchem/qcsetup.bash
|-
|hypatia
|356
|Anna
|6
|Intel(R) Core(TM) i7-3930K CPU @ 3.20GHz
|32GB
|Ubuntu 18.04.5
|-
|serenity
|378
|Andreea, César
|6
|Intel(R) Core(TM) i7-5930K CPU @ 3.50GHz
|64GB
|Ubuntu 18.04
|
|
|-
|sandstone
|378
|Kripa
|6
|Intel(R) Core(TM) i7-5820K CPU @ 3.30GHz
|32GB
|Ubuntu 20.04.4
|
|
|source /home/hynl2/code/qcsetup.bash
|-
|gritstone
|145
|Brian
|6
|Intel(R) Core(TM) i7-5820K CPU @ 3.30GHz
|32GB
|Ubuntu 18.04
|-
|moonraker
|145
|Nick Lee
Benjamin
|4
|Intel(R) Xeon(R) CPU E3-1270 v5 @ 3.60GHz
|64GB
|Ubuntu 18.04.5
|
|
|export QC_EXT_LIBS=/home/hynl2/code/extlib; source /home/hynl2/.qcsetup
|-
|obsidian
|145
|Lila, Isha, Zian
|6
|Intel(R) Core(TM) i7-6800K CPU @ 3.40GHz
|32GB
|Ubuntu 18.04
|NVIDIA GeForce GTX 750 Ti
(Compute Capability 5.0)
|-
|hylas
|378
|Fabio
|6
|Intel(R) Core(TM) i7-6800K CPU @ 3.40GHz
|32GB
|Ubuntu 18.04
|
|-
|cerberus
|379
|Alex
|6
|Intel(R) Core(TM) i7-5930K CPU @ 3.50GHz
|32GB
|CentOS 7 [FPGA development board host]
|-
|chucksty
|145
|David
|6
|Intel(R) Core(TM) i7-7800X CPU @ 3.50GHz
|64GB
|Ubuntu 18.04
|-
|chesterian
|145
|Bang, Tarik
|6
|Intel(R) Core(TM) i7-7800X CPU @ 3.50GHz
|64GB
|Ubuntu 18.04
|
|
|. /home/cbh31/code/qcsetup.public/qcselectversion.sh
|-
|behemoth
|145
|Brian, Arta
|8
|Intel(R) Xeon(R) Silver 4208 CPU @ 2.10GHz
|256GB
|Ubuntu 18.04.5
|-
|nemesis
|378
|Constance
|6
|Intel(R) Core(TM) i7-4930X CPU @ 3.40GHz
|16GB
|Ubuntu 18.04.5
|-
|chiron
|360
|Chiara
|10
|Intel(R) Xeon(R) Silver 4210R CPU @ 2.40GHz
|96GB
|Ubuntu 18.04.6
|-
|[https://www.ch.cam.ac.uk/computing/cerebro-compute-server cerebro]
|
|Alavi & Thom Groups
|12 x 20
16 x 8
|2x Intel(R) Xeon(R) CPU X5650 @ 2.67GHz
2x Intel(R) Xeon(R) CPU E5-2650 v2 @ 2.60GHz
|48GB
64GB
|Rocks 6.2 (CentOS 6.9) SLURM queuing
|
|
| source /home/hynl2/.qcsetup
|-
|[https://www.hpc.cam.ac.uk/high-performance-computing CSD3]
|
|University Tier-2
|32 x 1152
56 x 672
|2x Intel(R) Xeon Gold CPU 6142 @ 2.60GHz
2x Intel(R) Xeon Platinum CPU 8276 @ 2.20GHz
|192 or 384GB
192 or 384GB
|Scientific Linux release 7.9 (Nitrogen) SLURM queuing
|
|
|source /rds/project/ajwt3/rds-ajwt3-thom1/qchem_public/qcsetup.bash
|-
|[https://www.ch.cam.ac.uk/computing/nest-compute-server nest]
|
|CUC3 Group cluster
|40 x 20
|2x Cascade Lake Intel(R) Xeon Gold CPU 6248 @ 2.50GHz
|192GB
|CentOS Linux release 7.9.2009 (Core) SLURM queuing
|
|
|source /home/maf63/code/qcsetup.sh
|-
|[https://www.ch.cam.ac.uk/computing/rogue-gpu-server rogue]
|
|CUC3 Group cluster
|(8 nVidia V100 + 32 CPU) x 2
|2x Sky Lake Intel(R) Xeon Gold CPU 6130 @ 2.10GHz
|192GB
|CentOS Linux release 7.9.2009 (Core) SLURM queuing
|-
|[https://www.archer2.ac.uk/ archer-2]
|
|National Tier-1 Supercomputer
| 128 x 5848
|2 x AMD EPYC Zen2 (Rome) 64-core CPUs @ 2.2GHz
|256GB and 512GB
|
|}

=Notes=

To find out your OS version, run

lsb_release -a

To determine the RAM, run

head -1 /proc/meminfo

To find out core counts, run

cat /proc/cpuinfo

NB the number of 'processors' may be different from the number of cores owing to hyperthreading. The 'cpu cores' value is the one to take for single CPU machines.

[http://hobbit.ch.cam.ac.uk/xymon/workstations/workstationsThom/workstationsThomLinux/ Hobbit] may also have some useful information.

[https://www.ch.cam.ac.uk/computing/group-computer-representatives Group computer reps] can manage group entries in the department [https://chemdb.ch.cam.ac.uk/hotwire3/chemistry/ database] and there's a [https://apps.ch.cam.ac.uk/computer-reps/group-computers.php hardware inventory] and a [https://apps.ch.cam.ac.uk/space-management/space-report.php space report] too.

=Storage=
A common cause of running out of storage on your workstation is anaconda which puts stuff in /home. This can be safely moved to /scratch and a symbolic link.

cd $HOME
mv .conda /scratch/$USER
ln -s /scratch/$USER/.conda

To find out how much storage you have available and what files/directories are taking up space, the following commands are useful. The first one shows how much space is used/available on each partition, and the second shows the size of everything in the current directory.

df -h
du -sh * | sort -hr

{| class="wikitable"
!Name
!Type
!Amount
!Notes
|-
|/home/$USER
|local disk
|~50Gb per person (changed to ~100GB after upgrade to 20.04)
|Backed up with snapshots - Theory RIG policy
|-
|/scratch/$USER
|local disk
|~1Tb+ depending on computer
|NOT BACKED UP
|-
|/scratch/$USER/thom-fs-nethome
/scratch/$USER/thom-fs-common
|Chemistry network drive
|526Gb
|Backed up with snapshots - Theory RIG policy
|-
|/scratch/$USER/ifs-thom
|UIS IFS mount
|6144Gb
|Backed up with snapshots (24h+30d+12m)- avoid too much churn
|-
|/scratch/$USER/theory-fs
|Chemistry network drive
|~50Gb per person
|Backed up with snapshots - Theory RIG policy
|-
|cerebro:/filestore
|Local RAID array
|36950Gb
|Backed up with snapshots - Theory RIG policy
|}

=Theory RIG backup policy=
From https://www.ch.cam.ac.uk/computing/managed-linux-workstations-faq

have a few backups taken over the last 24 hours

then, about one backup per day for the previous week

then, about one backup per week for the previous month

then, about one backup per month for the previous few months

Group List

2022-04-12T09:36:08Z

Zz376:

<div style="text-align: center;">
<timeline>
# Constants
Define $width = 1200
Define $height = 900
Define $headerx = -520 # -width/2 + 80
Define $headery = -3

Define $bigbang = 01/01/2010
Define $bigcrunch = 12/04/2022

# Canvas settings
ImageSize = width:$width height:$height
PlotArea = right:20 left:150 bottom:100 top:0
AlignBars = late
Legend = columns:4 left:220 top:50 columnwidth:160
DateFormat = dd/mm/yyyy
Period = from:$bigbang till:$bigcrunch
TimeAxis = orientation:horizontal

# Colors
Colors =
id:canvas value:gray(0.95) # background for whole image
id:bars value:white # background for bars
id:grid1 value:gray(0.6) # major grid
id:grid2 value:gray(0.85) # minor grid
id:gray value:gray(0.5) # for colophon

id:Leader value:rgb(0.501,0,0.125) legend:Group_leader
id:Postdoc value:rgb(0.231,0.278,0.968) legend:Postdoctoral_researcher
id:PhD value:rgb(0.192,0.470,0.450) legend:PhD_student
id:MPhil value:rgb(0.392,0.770,0.750) legend:MPhil_student
id:PartIII value:rgb(1,0.580,0.2) legend:Part_III_student
id:Visitor value:rgb(0.2,0.8,1) legend:Visiting_researcher
id:StudentVisitor value:rgb(0.968,0.231,0.294) legend:Visiting_student
id:Summer value:rgb(1,0.521,0.909) legend:Summer_intern
id:Undergrad value:rgb(1,0.821,0.969) legend:Undergraduate_student

# Grids
ScaleMajor = unit:year grid:grid1 increment:1 start:01/01/2010
ScaleMinor = unit:month grid:grid2 increment:1 start:01/01/2010

# Presets
Define $GroupLeader = color:Leader width:0.1in
Define $Postdoc = color:Postdoc width:0.1in
Define $PhD = color:PhD width:0.1in
Define $MPhil = color:MPhil width:0.1in
Define $PartIII = color:PartIII width:0.1in
Define $Visitor = color:Visitor width:0.1in
Define $StudentVisitor = color:StudentVisitor width:0.1in
Define $Summer = color:Summer width:0.1in
Define $Undergrad = color:Undergrad width:0.1in
Define $guide = color:gray width:0.1
Define $break = color:gray width:2.5 from:$bigbang till:$bigcrunch fontsize:M shift:($headerx,$headery) align:right

# Plotdata generated using Python 3
# Script and data can be found at `ifs-thom/cbh31/groupwiki`.
# Paste content of plotscript.txt after the next line.
#######################################################
BarData =
# Current
bar:current
bar:AT0 text:Dr_Alex Thom
bar:FA0 text:_Fabio Albertani
bar:MF0 text:_Maria-Andreea Filip
bar:KP0 text:_Kripa Panchagnula
bar:CL0 text:_Chiara Leadbeater
bar:BZ0 text:_Brian Zhao
bar:HYLN0 text:_Heng You Lee (Nicholas)
bar:LCT0 text:_Lila Cadi Tazi
# Past
bar:past
bar:AZ0 text:Dr_Alberto Zoccante
bar:WV0 text:Dr_William Vigor
bar:JK0 text:Dr_Jonathan Kimmitt
bar:SC0 text:Dr_Salvatore Cardamone
bar:RF0 text:_Ruth Franklin
bar:CS0 text:Dr_Charles Scott
bar:VN0 text:Dr_Verena Neufeld
bar:HB0 text:Dr_Hugh Burton
bar:BCH0 text:Dr_Bang C. Huynh
bar:DI0 text:Dr_David Izuogu
bar:HT0 text:_Henry Tran
bar:AC0 text:_Alexander Card
bar:AS0 text:_Arta Safari
bar:BS0 text:_Benjamin Shires
bar:SC1 text:_Seonghoon Choi
bar:LB0 text:_Letitia-Iona Birnoschi
bar:AG0 text:_Alexander Gunasekera
bar:GB0 text:_George Bateman
bar:EG0 text:_Elizabeth Guest
bar:HX0 text:_Hang Xu
bar:IJ0 text:_Isha Janbakhsh
bar:MZT0 text:_Minghao Zhang (Tiger)
bar:RC0 text:_Raphael Colman
bar:JF0 text:_James Farrell
bar:RDR0 text:Dr_Roberto Di Remigio
bar:TI0 text:_Tomohiro Ichiba
bar:RZ0 text:_Rhiannon Zarotiadis
bar:CF0 text:_César Feniou
bar:TB0 text:_Tarik Benyahia
bar:BM0 text:_Benjamin Mokhtar
bar:CK0 text:_Constance Kraay
bar:AB0 text:_Anna Bui
bar:ZW0 text:_Zian Wang
bar:RB0 text:_Raz Benson
bar:TS0 text:_Tom Sayer
bar:AP0 text:_Adam Prada
bar:JB0 text:_Jamie Buck
bar:KJ0 text:_Kris Jensen
bar:JE0 text:_Jiri Etrych
bar:IW0 text:_Ian Wu
bar:ZWR0 text:_Zhipeng Wang (Richard)
bar:DK0 text:_David Kovacs
bar:JL0 text:_Jimin Li
bar:TA0 text:_Toby Antipaas

PlotData =
align:center textcolor:black fontsize:S shift:(0,-5)

# Current
bar:current text:Current_members $break
bar:AT0 from: $bigbang till: 01/10/2010 $guide
bar:AT0 from: 01/10/2010 till: 12/04/2022 $GroupLeader text:
bar:AT0 from: 12/04/2022 till: $bigcrunch $guide
bar:FA0 from: $bigbang till: 01/10/2018 $guide
bar:FA0 from: 01/10/2018 till: 12/04/2022 $PhD text:
bar:FA0 from: 12/04/2022 till: $bigcrunch $guide
bar:MF0 from: $bigbang till: 01/08/2017 $guide
bar:MF0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:MF0 from: 30/09/2017 till: 01/10/2018 $guide
bar:MF0 from: 01/10/2018 till: 12/04/2022 $PhD text:
bar:MF0 from: 12/04/2022 till: $bigcrunch $guide
bar:KP0 from: $bigbang till: 12/08/2019 $guide
bar:KP0 from: 12/08/2019 till: 30/09/2019 $Summer text:
bar:KP0 from: 30/09/2019 till: 01/10/2019 $guide
bar:KP0 from: 01/10/2019 till: 30/06/2020 $PartIII text:
bar:KP0 from: 30/06/2020 till: 01/10/2020 $guide
bar:KP0 from: 01/10/2020 till: 12/04/2022 $PhD text:
bar:KP0 from: 12/04/2022 till: $bigcrunch $guide
bar:CL0 from: $bigbang till: 01/10/2021 $guide
bar:CL0 from: 01/10/2021 till: 12/04/2022 $PhD text:
bar:CL0 from: 12/04/2022 till: $bigcrunch $guide
bar:BZ0 from: $bigbang till: 15/07/2021 $guide
bar:BZ0 from: 15/07/2021 till: 30/09/2021 $Summer text:
bar:BZ0 from: 30/09/2021 till: 01/10/2021 $guide
bar:BZ0 from: 01/10/2021 till: 12/04/2022 $MPhil text:
bar:BZ0 from: 12/04/2022 till: $bigcrunch $guide
bar:HYLN0 from: $bigbang till: 29/07/2019 $guide
bar:HYLN0 from: 29/07/2019 till: 30/09/2019 $Summer text:
bar:HYLN0 from: 30/09/2019 till: 06/07/2020 $guide
bar:HYLN0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:HYLN0 from: 30/09/2020 till: 01/10/2020 $guide
bar:HYLN0 from: 01/10/2020 till: 30/06/2021 $Undergrad text:
bar:HYLN0 from: 30/06/2021 till: 15/07/2021 $guide
bar:HYLN0 from: 15/07/2021 till: 30/09/2021 $Summer text:
bar:HYLN0 from: 30/09/2021 till: 01/10/2021 $guide
bar:HYLN0 from: 01/10/2021 till: 12/04/2022 $MPhil text:
bar:HYLN0 from: 12/04/2022 till: $bigcrunch $guide
bar:LCT0 from: $bigbang till: 08/02/2022 $guide
bar:LCT0 from: 08/02/2022 till: 12/04/2022 $Visitor text:
bar:LCT0 from: 12/04/2022 till: $bigcrunch $guide

# Past
bar:past text:Past_members $break
bar:AZ0 from: $bigbang till: 15/08/2012 $guide
bar:AZ0 from: 15/08/2012 till: 14/08/2013 $Postdoc text:
bar:AZ0 from: 14/08/2013 till: $bigcrunch $guide
bar:WV0 from: $bigbang till: 01/10/2011 $guide
bar:WV0 from: 01/10/2011 till: 01/10/2015 $PhD text:Imperial College London
bar:WV0 from: 01/10/2015 till: 01/10/2016 $Postdoc text:
bar:WV0 from: 01/10/2016 till: $bigcrunch $guide
bar:JK0 from: $bigbang till: 02/11/2015 $guide
bar:JK0 from: 02/11/2015 till: 31/12/2017 $Postdoc text:
bar:JK0 from: 31/12/2017 till: $bigcrunch $guide
bar:SC0 from: $bigbang till: 01/10/2016 $guide
bar:SC0 from: 01/10/2016 till: 30/09/2018 $Postdoc text:
bar:SC0 from: 30/09/2018 till: $bigcrunch $guide
bar:RF0 from: $bigbang till: 01/10/2014 $guide
bar:RF0 from: 01/10/2014 till: 01/10/2017 $PhD text:
bar:RF0 from: 01/10/2017 till: $bigcrunch $guide
bar:CS0 from: $bigbang till: 01/10/2014 $guide
bar:CS0 from: 01/10/2014 till: 30/06/2015 $PartIII text:
bar:CS0 from: 30/06/2015 till: 05/09/2015 $guide
bar:CS0 from: 05/09/2015 till: 30/09/2019 $PhD text:
bar:CS0 from: 30/09/2019 till: $bigcrunch $guide
bar:VN0 from: $bigbang till: 05/10/2015 $guide
bar:VN0 from: 05/10/2015 till: 31/10/2019 $PhD text:
bar:VN0 from: 31/10/2019 till: $bigcrunch $guide
bar:HB0 from: $bigbang till: 01/07/2014 $guide
bar:HB0 from: 01/07/2014 till: 30/09/2014 $Summer text:
bar:HB0 from: 30/09/2014 till: 01/07/2015 $guide
bar:HB0 from: 01/07/2015 till: 30/09/2015 $Summer text:
bar:HB0 from: 30/09/2015 till: 26/09/2016 $guide
bar:HB0 from: 26/09/2016 till: 30/09/2020 $PhD text:
bar:HB0 from: 30/09/2020 till: $bigcrunch $guide
bar:BCH0 from: $bigbang till: 01/10/2016 $guide
bar:BCH0 from: 01/10/2016 till: 30/06/2017 $PartIII text:
bar:BCH0 from: 30/06/2017 till: 02/10/2017 $guide
bar:BCH0 from: 02/10/2017 till: 30/09/2021 $PhD text:
bar:BCH0 from: 30/09/2021 till: $bigcrunch $guide
bar:DI0 from: $bigbang till: 09/10/2017 $guide
bar:DI0 from: 09/10/2017 till: 31/12/2021 $PhD text:
bar:DI0 from: 31/12/2021 till: $bigcrunch $guide
bar:HT0 from: $bigbang till: 30/09/2016 $guide
bar:HT0 from: 30/09/2016 till: 17/08/2017 $MPhil text:
bar:HT0 from: 17/08/2017 till: $bigcrunch $guide
bar:AC0 from: $bigbang till: 05/10/2016 $guide
bar:AC0 from: 05/10/2016 till: 30/08/2017 $MPhil text:
bar:AC0 from: 30/08/2017 till: $bigcrunch $guide
bar:AS0 from: $bigbang till: 01/10/2020 $guide
bar:AS0 from: 01/10/2020 till: 30/09/2021 $MPhil text:
bar:AS0 from: 30/09/2021 till: $bigcrunch $guide
bar:BS0 from: $bigbang till: 04/10/2016 $guide
bar:BS0 from: 04/10/2016 till: 30/06/2017 $PartIII text:
bar:BS0 from: 30/06/2017 till: $bigcrunch $guide
bar:SC1 from: $bigbang till: 01/07/2016 $guide
bar:SC1 from: 01/07/2016 till: 30/09/2016 $Summer text:
bar:SC1 from: 30/09/2016 till: 04/10/2016 $guide
bar:SC1 from: 04/10/2016 till: 30/06/2017 $PartIII text:
bar:SC1 from: 30/06/2017 till: $bigcrunch $guide
bar:LB0 from: $bigbang till: 02/10/2017 $guide
bar:LB0 from: 02/10/2017 till: 30/06/2018 $PartIII text:
bar:LB0 from: 30/06/2018 till: $bigcrunch $guide
bar:AG0 from: $bigbang till: 01/10/2018 $guide
bar:AG0 from: 01/10/2018 till: 30/06/2019 $PartIII text:
bar:AG0 from: 30/06/2019 till: $bigcrunch $guide
bar:GB0 from: $bigbang till: 01/10/2019 $guide
bar:GB0 from: 01/10/2019 till: 30/06/2020 $PartIII text:
bar:GB0 from: 30/06/2020 till: $bigcrunch $guide
bar:EG0 from: $bigbang till: 06/07/2020 $guide
bar:EG0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:EG0 from: 30/09/2020 till: 01/10/2020 $guide
bar:EG0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:EG0 from: 30/06/2021 till: $bigcrunch $guide
bar:HX0 from: $bigbang till: 06/07/2020 $guide
bar:HX0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:HX0 from: 30/09/2020 till: 01/10/2020 $guide
bar:HX0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:HX0 from: 30/06/2021 till: $bigcrunch $guide
bar:IJ0 from: $bigbang till: 01/10/2020 $guide
bar:IJ0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:IJ0 from: 30/06/2021 till: $bigcrunch $guide
bar:MZT0 from: $bigbang till: 02/08/2019 $guide
bar:MZT0 from: 02/08/2019 till: 30/09/2019 $Summer text:
bar:MZT0 from: 30/09/2019 till: 20/07/2020 $guide
bar:MZT0 from: 20/07/2020 till: 30/09/2020 $Summer text:
bar:MZT0 from: 30/09/2020 till: 01/10/2020 $guide
bar:MZT0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:MZT0 from: 30/06/2021 till: $bigcrunch $guide
bar:RC0 from: $bigbang till: 18/08/2015 $guide
bar:RC0 from: 18/08/2015 till: 16/09/2015 $Visitor text:
bar:RC0 from: 16/09/2015 till: $bigcrunch $guide
bar:JF0 from: $bigbang till: 01/11/2015 $guide
bar:JF0 from: 01/11/2015 till: 17/10/2016 $Visitor text:
bar:JF0 from: 17/10/2016 till: $bigcrunch $guide
bar:RDR0 from: $bigbang till: 05/01/2018 $guide
bar:RDR0 from: 05/01/2018 till: 02/02/2018 $Visitor text:
bar:RDR0 from: 02/02/2018 till: $bigcrunch $guide
bar:TI0 from: $bigbang till: 16/04/2018 $guide
bar:TI0 from: 16/04/2018 till: 01/10/2018 $StudentVisitor text:
bar:TI0 from: 01/10/2018 till: $bigcrunch $guide
bar:RZ0 from: $bigbang till: 04/03/2019 $guide
bar:RZ0 from: 04/03/2019 till: 29/07/2019 $StudentVisitor text:
bar:RZ0 from: 29/07/2019 till: $bigcrunch $guide
bar:CF0 from: $bigbang till: 08/02/2021 $guide
bar:CF0 from: 08/02/2021 till: 31/08/2021 $StudentVisitor text:
bar:CF0 from: 31/08/2021 till: $bigcrunch $guide
bar:TB0 from: $bigbang till: 08/02/2021 $guide
bar:TB0 from: 08/02/2021 till: 31/08/2021 $StudentVisitor text:
bar:TB0 from: 31/08/2021 till: $bigcrunch $guide
bar:BM0 from: $bigbang till: 12/04/2021 $guide
bar:BM0 from: 12/04/2021 till: 30/09/2021 $StudentVisitor text:
bar:BM0 from: 30/09/2021 till: $bigcrunch $guide
bar:CK0 from: $bigbang till: 06/07/2020 $guide
bar:CK0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:CK0 from: 30/09/2020 till: 01/10/2020 $guide
bar:CK0 from: 01/10/2020 till: 30/09/2021 $Undergrad text:
bar:CK0 from: 30/09/2021 till: $bigcrunch $guide
bar:AB0 from: $bigbang till: 15/07/2021 $guide
bar:AB0 from: 15/07/2021 till: 30/09/2021 $Undergrad text:
bar:AB0 from: 30/09/2021 till: $bigcrunch $guide
bar:ZW0 from: $bigbang till: 15/07/2021 $guide
bar:ZW0 from: 15/07/2021 till: 30/09/2021 $Undergrad text:
bar:ZW0 from: 30/09/2021 till: $bigcrunch $guide
bar:RB0 from: $bigbang till: 01/08/2016 $guide
bar:RB0 from: 01/08/2016 till: 30/09/2016 $Summer text:
bar:RB0 from: 30/09/2016 till: $bigcrunch $guide
bar:TS0 from: $bigbang till: 01/08/2016 $guide
bar:TS0 from: 01/08/2016 till: 30/09/2016 $Summer text:
bar:TS0 from: 30/09/2016 till: $bigcrunch $guide
bar:AP0 from: $bigbang till: 01/08/2017 $guide
bar:AP0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:AP0 from: 30/09/2017 till: $bigcrunch $guide
bar:JB0 from: $bigbang till: 01/08/2017 $guide
bar:JB0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:JB0 from: 30/09/2017 till: $bigcrunch $guide
bar:KJ0 from: $bigbang till: 07/08/2017 $guide
bar:KJ0 from: 07/08/2017 till: 29/09/2017 $Summer text:
bar:KJ0 from: 29/09/2017 till: $bigcrunch $guide
bar:JE0 from: $bigbang till: 25/06/2018 $guide
bar:JE0 from: 25/06/2018 till: 04/09/2018 $Summer text:
bar:JE0 from: 04/09/2018 till: $bigcrunch $guide
bar:IW0 from: $bigbang till: 07/08/2018 $guide
bar:IW0 from: 07/08/2018 till: 30/09/2018 $Summer text:
bar:IW0 from: 30/09/2018 till: $bigcrunch $guide
bar:ZWR0 from: $bigbang till: 03/09/2018 $guide
bar:ZWR0 from: 03/09/2018 till: 01/10/2018 $Summer text:
bar:ZWR0 from: 01/10/2018 till: $bigcrunch $guide
bar:DK0 from: $bigbang till: 29/07/2019 $guide
bar:DK0 from: 29/07/2019 till: 30/09/2019 $Summer text:
bar:DK0 from: 30/09/2019 till: $bigcrunch $guide
bar:JL0 from: $bigbang till: 06/07/2020 $guide
bar:JL0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:JL0 from: 30/09/2020 till: $bigcrunch $guide
bar:TA0 from: $bigbang till: 06/07/2020 $guide
bar:TA0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:TA0 from: 30/09/2020 till: $bigcrunch $guide

# Academic years
LineData =
layer:back color:gray width:0.1
at:01/10/2010
at:01/10/2011
at:01/10/2012
at:01/10/2013
at:01/10/2014
at:01/10/2015
at:01/10/2016
at:01/10/2017
at:01/10/2018
at:01/10/2019
at:01/10/2020
at:01/10/2021
#######################################################
# Paste content of plotscript.txt until the above line.

# Updated on 11th April 2022.
# To edit, please refer to <code>ifs-thom/cbh31/groupwiki</code>.

</timeline>
</div>

= Present =
=== Head of group ===

Dr Alex Thom

=== Postdoctoral researchers ===

=== Graduate students ===

Fabio Albertani

Andreea Filip

Kripa Panchagnula

Chiara Leadbeater

=== MPhil Students ===

Heng You Lee (Nicholas)

Brian Zhao

=== Part III students ===

=== Visiting Students ===

César Feniou

Tarik Benyahia

Lila Cadi Tazi

=== Undergraduate Students ===

= Past =

Dr David Izuogu

Constance Kraay

Elizabeth Guest

Hang Xu

Isha Janbakhsh

Minghao Zhang (Tiger)

Arta Safari

Dr Bang Cong Huynh

Raphael Colman

Dr Alberto Zoccante

Hamish Hiscock

Mark Chonofsky

Avir Patel

Dr William Vigor

James Bumby

Thomas Fuller

Simon Kilroy

Mark Driver

Tom Sayer

Dr James Farrell

Raz Benson

Seonghoon Choi

Benjamin Shires

Henry Tran

Alex Card

Dr Jonathan Kimmitt

Dr Salvatore Cardamone

Ruth Franklin

Letitia Birnoschi

Alex Gunasekera

Dr Charlie Scott

Dr Verena Neufeld

George Bateman

Dr Hugh Burton

Group List

2022-04-12T09:35:15Z

Zz376:

<div style="text-align: center;">
<timeline>
# Constants
Define $width = 1200
Define $height = 900
Define $headerx = -520 # -width/2 + 80
Define $headery = -3

Define $bigbang = 01/01/2010
Define $bigcrunch = 12/04/2022

# Canvas settings
ImageSize = width:$width height:$height
PlotArea = right:20 left:150 bottom:100 top:0
AlignBars = late
Legend = columns:4 left:220 top:50 columnwidth:160
DateFormat = dd/mm/yyyy
Period = from:$bigbang till:$bigcrunch
TimeAxis = orientation:horizontal

# Colors
Colors =
id:canvas value:gray(0.95) # background for whole image
id:bars value:white # background for bars
id:grid1 value:gray(0.6) # major grid
id:grid2 value:gray(0.85) # minor grid
id:gray value:gray(0.5) # for colophon

id:Leader value:rgb(0.501,0,0.125) legend:Group_leader
id:Postdoc value:rgb(0.231,0.278,0.968) legend:Postdoctoral_researcher
id:PhD value:rgb(0.192,0.470,0.450) legend:PhD_student
id:MPhil value:rgb(0.392,0.770,0.750) legend:MPhil_student
id:PartIII value:rgb(1,0.580,0.2) legend:Part_III_student
id:Visitor value:rgb(0.2,0.8,1) legend:Visiting_researcher
id:StudentVisitor value:rgb(0.968,0.231,0.294) legend:Visiting_student
id:Summer value:rgb(1,0.521,0.909) legend:Summer_intern
id:Undergrad value:rgb(1,0.821,0.969) legend:Undergraduate_student

# Grids
ScaleMajor = unit:year grid:grid1 increment:1 start:01/01/2010
ScaleMinor = unit:month grid:grid2 increment:1 start:01/01/2010

# Presets
Define $GroupLeader = color:Leader width:0.1in
Define $Postdoc = color:Postdoc width:0.1in
Define $PhD = color:PhD width:0.1in
Define $MPhil = color:MPhil width:0.1in
Define $PartIII = color:PartIII width:0.1in
Define $Visitor = color:Visitor width:0.1in
Define $StudentVisitor = color:StudentVisitor width:0.1in
Define $Summer = color:Summer width:0.1in
Define $Undergrad = color:Undergrad width:0.1in
Define $guide = color:gray width:0.1
Define $break = color:gray width:2.5 from:$bigbang till:$bigcrunch fontsize:M shift:($headerx,$headery) align:right

# Plotdata generated using Python 3
# Script and data can be found at `ifs-thom/cbh31/groupwiki`.
# Paste content of plotscript.txt after the next line.
#######################################################
BarData =
# Current
bar:current
bar:AT0 text:Dr_Alex Thom
bar:FA0 text:_Fabio Albertani
bar:MF0 text:_Maria-Andreea Filip
bar:KP0 text:_Kripa Panchagnula
bar:CL0 text:_Chiara Leadbeater
bar:BZ0 text:_Brian Zhao
bar:HYLN0 text:_Heng You Lee (Nicholas)
bar:LCT0 text:_Lila Cadi Tazi
# Past
bar:past
bar:AZ0 text:Dr_Alberto Zoccante
bar:WV0 text:Dr_William Vigor
bar:JK0 text:Dr_Jonathan Kimmitt
bar:SC0 text:Dr_Salvatore Cardamone
bar:RF0 text:_Ruth Franklin
bar:CS0 text:Dr_Charles Scott
bar:VN0 text:Dr_Verena Neufeld
bar:HB0 text:Dr_Hugh Burton
bar:BCH0 text:Dr_Bang C. Huynh
bar:DI0 text:Dr_David Izuogu
bar:HT0 text:_Henry Tran
bar:AC0 text:_Alexander Card
bar:AS0 text:_Arta Safari
bar:BS0 text:_Benjamin Shires
bar:SC1 text:_Seonghoon Choi
bar:LB0 text:_Letitia-Iona Birnoschi
bar:AG0 text:_Alexander Gunasekera
bar:GB0 text:_George Bateman
bar:EG0 text:_Elizabeth Guest
bar:HX0 text:_Hang Xu
bar:IJ0 text:_Isha Janbakhsh
bar:MZT0 text:_Minghao Zhang (Tiger)
bar:RC0 text:_Raphael Colman
bar:JF0 text:_James Farrell
bar:RDR0 text:Dr_Roberto Di Remigio
bar:TI0 text:_Tomohiro Ichiba
bar:RZ0 text:_Rhiannon Zarotiadis
bar:CF0 text:_César Feniou
bar:TB0 text:_Tarik Benyahia
bar:BM0 text:_Benjamin Mokhtar
bar:CK0 text:_Constance Kraay
bar:AB0 text:_Anna Bui
bar:ZW0 text:_Zian Wang
bar:RB0 text:_Raz Benson
bar:TS0 text:_Tom Sayer
bar:AP0 text:_Adam Prada
bar:JB0 text:_Jamie Buck
bar:KJ0 text:_Kris Jensen
bar:JE0 text:_Jiri Etrych
bar:IW0 text:_Ian Wu
bar:ZWR0 text:_Zhipeng Wang (Richard)
bar:DK0 text:_David Kovacs
bar:JL0 text:_Jimin Li
bar:TA0 text:_Toby Antipaas

PlotData =
align:center textcolor:black fontsize:S shift:(0,-5)

# Current
bar:current text:Current_members $break
bar:AT0 from: $bigbang till: 01/10/2010 $guide
bar:AT0 from: 01/10/2010 till: 12/04/2022 $GroupLeader text:
bar:AT0 from: 12/04/2022 till: $bigcrunch $guide
bar:FA0 from: $bigbang till: 01/10/2018 $guide
bar:FA0 from: 01/10/2018 till: 12/04/2022 $PhD text:
bar:FA0 from: 12/04/2022 till: $bigcrunch $guide
bar:MF0 from: $bigbang till: 01/08/2017 $guide
bar:MF0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:MF0 from: 30/09/2017 till: 01/10/2018 $guide
bar:MF0 from: 01/10/2018 till: 12/04/2022 $PhD text:
bar:MF0 from: 12/04/2022 till: $bigcrunch $guide
bar:KP0 from: $bigbang till: 12/08/2019 $guide
bar:KP0 from: 12/08/2019 till: 30/09/2019 $Summer text:
bar:KP0 from: 30/09/2019 till: 01/10/2019 $guide
bar:KP0 from: 01/10/2019 till: 30/06/2020 $PartIII text:
bar:KP0 from: 30/06/2020 till: 01/10/2020 $guide
bar:KP0 from: 01/10/2020 till: 12/04/2022 $PhD text:
bar:KP0 from: 12/04/2022 till: $bigcrunch $guide
bar:CL0 from: $bigbang till: 01/10/2021 $guide
bar:CL0 from: 01/10/2021 till: 12/04/2022 $PhD text:
bar:CL0 from: 12/04/2022 till: $bigcrunch $guide
bar:BZ0 from: $bigbang till: 15/07/2021 $guide
bar:BZ0 from: 15/07/2021 till: 30/09/2021 $Summer text:
bar:BZ0 from: 30/09/2021 till: 01/10/2021 $guide
bar:BZ0 from: 01/10/2021 till: 12/04/2022 $MPhil text:
bar:BZ0 from: 12/04/2022 till: $bigcrunch $guide
bar:HYLN0 from: $bigbang till: 29/07/2019 $guide
bar:HYLN0 from: 29/07/2019 till: 30/09/2019 $Summer text:
bar:HYLN0 from: 30/09/2019 till: 06/07/2020 $guide
bar:HYLN0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:HYLN0 from: 30/09/2020 till: 01/10/2020 $guide
bar:HYLN0 from: 01/10/2020 till: 30/06/2021 $Undergrad text:
bar:HYLN0 from: 30/06/2021 till: 15/07/2021 $guide
bar:HYLN0 from: 15/07/2021 till: 30/09/2021 $Summer text:
bar:HYLN0 from: 30/09/2021 till: 01/10/2021 $guide
bar:HYLN0 from: 01/10/2021 till: 12/04/2022 $MPhil text:
bar:HYLN0 from: 12/04/2022 till: $bigcrunch $guide
bar:LCT0 from: $bigbang till: 08/02/2022 $guide
bar:LCT0 from: 08/02/2022 till: 12/04/2022 $Visitor text:
bar:LCT0 from: 12/04/2022 till: $bigcrunch $guide

# Past
bar:past text:Past_members $break
bar:AZ0 from: $bigbang till: 15/08/2012 $guide
bar:AZ0 from: 15/08/2012 till: 14/08/2013 $Postdoc text:
bar:AZ0 from: 14/08/2013 till: $bigcrunch $guide
bar:WV0 from: $bigbang till: 01/10/2011 $guide
bar:WV0 from: 01/10/2011 till: 01/10/2015 $PhD text:Imperial College London
bar:WV0 from: 01/10/2015 till: 01/10/2016 $Postdoc text:
bar:WV0 from: 01/10/2016 till: $bigcrunch $guide
bar:JK0 from: $bigbang till: 02/11/2015 $guide
bar:JK0 from: 02/11/2015 till: 31/12/2017 $Postdoc text:
bar:JK0 from: 31/12/2017 till: $bigcrunch $guide
bar:SC0 from: $bigbang till: 01/10/2016 $guide
bar:SC0 from: 01/10/2016 till: 30/09/2018 $Postdoc text:
bar:SC0 from: 30/09/2018 till: $bigcrunch $guide
bar:RF0 from: $bigbang till: 01/10/2014 $guide
bar:RF0 from: 01/10/2014 till: 01/10/2017 $PhD text:
bar:RF0 from: 01/10/2017 till: $bigcrunch $guide
bar:CS0 from: $bigbang till: 01/10/2014 $guide
bar:CS0 from: 01/10/2014 till: 30/06/2015 $PartIII text:
bar:CS0 from: 30/06/2015 till: 05/09/2015 $guide
bar:CS0 from: 05/09/2015 till: 30/09/2019 $PhD text:
bar:CS0 from: 30/09/2019 till: $bigcrunch $guide
bar:VN0 from: $bigbang till: 05/10/2015 $guide
bar:VN0 from: 05/10/2015 till: 31/10/2019 $PhD text:
bar:VN0 from: 31/10/2019 till: $bigcrunch $guide
bar:HB0 from: $bigbang till: 01/07/2014 $guide
bar:HB0 from: 01/07/2014 till: 30/09/2014 $Summer text:
bar:HB0 from: 30/09/2014 till: 01/07/2015 $guide
bar:HB0 from: 01/07/2015 till: 30/09/2015 $Summer text:
bar:HB0 from: 30/09/2015 till: 26/09/2016 $guide
bar:HB0 from: 26/09/2016 till: 30/09/2020 $PhD text:
bar:HB0 from: 30/09/2020 till: $bigcrunch $guide
bar:BCH0 from: $bigbang till: 01/10/2016 $guide
bar:BCH0 from: 01/10/2016 till: 30/06/2017 $PartIII text:
bar:BCH0 from: 30/06/2017 till: 02/10/2017 $guide
bar:BCH0 from: 02/10/2017 till: 30/09/2021 $PhD text:
bar:BCH0 from: 30/09/2021 till: $bigcrunch $guide
bar:DI0 from: $bigbang till: 09/10/2017 $guide
bar:DI0 from: 09/10/2017 till: 31/12/2021 $PhD text:
bar:DI0 from: 31/12/2021 till: $bigcrunch $guide
bar:HT0 from: $bigbang till: 30/09/2016 $guide
bar:HT0 from: 30/09/2016 till: 17/08/2017 $MPhil text:
bar:HT0 from: 17/08/2017 till: $bigcrunch $guide
bar:AC0 from: $bigbang till: 05/10/2016 $guide
bar:AC0 from: 05/10/2016 till: 30/08/2017 $MPhil text:
bar:AC0 from: 30/08/2017 till: $bigcrunch $guide
bar:AS0 from: $bigbang till: 01/10/2020 $guide
bar:AS0 from: 01/10/2020 till: 30/09/2021 $MPhil text:
bar:AS0 from: 30/09/2021 till: $bigcrunch $guide
bar:BS0 from: $bigbang till: 04/10/2016 $guide
bar:BS0 from: 04/10/2016 till: 30/06/2017 $PartIII text:
bar:BS0 from: 30/06/2017 till: $bigcrunch $guide
bar:SC1 from: $bigbang till: 01/07/2016 $guide
bar:SC1 from: 01/07/2016 till: 30/09/2016 $Summer text:
bar:SC1 from: 30/09/2016 till: 04/10/2016 $guide
bar:SC1 from: 04/10/2016 till: 30/06/2017 $PartIII text:
bar:SC1 from: 30/06/2017 till: $bigcrunch $guide
bar:LB0 from: $bigbang till: 02/10/2017 $guide
bar:LB0 from: 02/10/2017 till: 30/06/2018 $PartIII text:
bar:LB0 from: 30/06/2018 till: $bigcrunch $guide
bar:AG0 from: $bigbang till: 01/10/2018 $guide
bar:AG0 from: 01/10/2018 till: 30/06/2019 $PartIII text:
bar:AG0 from: 30/06/2019 till: $bigcrunch $guide
bar:GB0 from: $bigbang till: 01/10/2019 $guide
bar:GB0 from: 01/10/2019 till: 30/06/2020 $PartIII text:
bar:GB0 from: 30/06/2020 till: $bigcrunch $guide
bar:EG0 from: $bigbang till: 06/07/2020 $guide
bar:EG0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:EG0 from: 30/09/2020 till: 01/10/2020 $guide
bar:EG0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:EG0 from: 30/06/2021 till: $bigcrunch $guide
bar:HX0 from: $bigbang till: 06/07/2020 $guide
bar:HX0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:HX0 from: 30/09/2020 till: 01/10/2020 $guide
bar:HX0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:HX0 from: 30/06/2021 till: $bigcrunch $guide
bar:IJ0 from: $bigbang till: 01/10/2020 $guide
bar:IJ0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:IJ0 from: 30/06/2021 till: $bigcrunch $guide
bar:MZT0 from: $bigbang till: 02/08/2019 $guide
bar:MZT0 from: 02/08/2019 till: 30/09/2019 $Summer text:
bar:MZT0 from: 30/09/2019 till: 20/07/2020 $guide
bar:MZT0 from: 20/07/2020 till: 30/09/2020 $Summer text:
bar:MZT0 from: 30/09/2020 till: 01/10/2020 $guide
bar:MZT0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:MZT0 from: 30/06/2021 till: $bigcrunch $guide
bar:RC0 from: $bigbang till: 18/08/2015 $guide
bar:RC0 from: 18/08/2015 till: 16/09/2015 $Visitor text:
bar:RC0 from: 16/09/2015 till: $bigcrunch $guide
bar:JF0 from: $bigbang till: 01/11/2015 $guide
bar:JF0 from: 01/11/2015 till: 17/10/2016 $Visitor text:
bar:JF0 from: 17/10/2016 till: $bigcrunch $guide
bar:RDR0 from: $bigbang till: 05/01/2018 $guide
bar:RDR0 from: 05/01/2018 till: 02/02/2018 $Visitor text:
bar:RDR0 from: 02/02/2018 till: $bigcrunch $guide
bar:TI0 from: $bigbang till: 16/04/2018 $guide
bar:TI0 from: 16/04/2018 till: 01/10/2018 $StudentVisitor text:
bar:TI0 from: 01/10/2018 till: $bigcrunch $guide
bar:RZ0 from: $bigbang till: 04/03/2019 $guide
bar:RZ0 from: 04/03/2019 till: 29/07/2019 $StudentVisitor text:
bar:RZ0 from: 29/07/2019 till: $bigcrunch $guide
bar:CF0 from: $bigbang till: 08/02/2021 $guide
bar:CF0 from: 08/02/2021 till: 31/08/2021 $StudentVisitor text:
bar:CF0 from: 31/08/2021 till: $bigcrunch $guide
bar:TB0 from: $bigbang till: 08/02/2021 $guide
bar:TB0 from: 08/02/2021 till: 31/08/2021 $StudentVisitor text:
bar:TB0 from: 31/08/2021 till: $bigcrunch $guide
bar:BM0 from: $bigbang till: 12/04/2021 $guide
bar:BM0 from: 12/04/2021 till: 30/09/2021 $StudentVisitor text:
bar:BM0 from: 30/09/2021 till: $bigcrunch $guide
bar:CK0 from: $bigbang till: 06/07/2020 $guide
bar:CK0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:CK0 from: 30/09/2020 till: 01/10/2020 $guide
bar:CK0 from: 01/10/2020 till: 30/09/2021 $Undergrad text:
bar:CK0 from: 30/09/2021 till: $bigcrunch $guide
bar:AB0 from: $bigbang till: 15/07/2021 $guide
bar:AB0 from: 15/07/2021 till: 30/09/2021 $Undergrad text:
bar:AB0 from: 30/09/2021 till: $bigcrunch $guide
bar:ZW0 from: $bigbang till: 15/07/2021 $guide
bar:ZW0 from: 15/07/2021 till: 30/09/2021 $Undergrad text:
bar:ZW0 from: 30/09/2021 till: $bigcrunch $guide
bar:RB0 from: $bigbang till: 01/08/2016 $guide
bar:RB0 from: 01/08/2016 till: 30/09/2016 $Summer text:
bar:RB0 from: 30/09/2016 till: $bigcrunch $guide
bar:TS0 from: $bigbang till: 01/08/2016 $guide
bar:TS0 from: 01/08/2016 till: 30/09/2016 $Summer text:
bar:TS0 from: 30/09/2016 till: $bigcrunch $guide
bar:AP0 from: $bigbang till: 01/08/2017 $guide
bar:AP0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:AP0 from: 30/09/2017 till: $bigcrunch $guide
bar:JB0 from: $bigbang till: 01/08/2017 $guide
bar:JB0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:JB0 from: 30/09/2017 till: $bigcrunch $guide
bar:KJ0 from: $bigbang till: 07/08/2017 $guide
bar:KJ0 from: 07/08/2017 till: 29/09/2017 $Summer text:
bar:KJ0 from: 29/09/2017 till: $bigcrunch $guide
bar:JE0 from: $bigbang till: 25/06/2018 $guide
bar:JE0 from: 25/06/2018 till: 04/09/2018 $Summer text:
bar:JE0 from: 04/09/2018 till: $bigcrunch $guide
bar:IW0 from: $bigbang till: 07/08/2018 $guide
bar:IW0 from: 07/08/2018 till: 30/09/2018 $Summer text:
bar:IW0 from: 30/09/2018 till: $bigcrunch $guide
bar:ZWR0 from: $bigbang till: 03/09/2018 $guide
bar:ZWR0 from: 03/09/2018 till: 01/10/2018 $Summer text:
bar:ZWR0 from: 01/10/2018 till: $bigcrunch $guide
bar:DK0 from: $bigbang till: 29/07/2019 $guide
bar:DK0 from: 29/07/2019 till: 30/09/2019 $Summer text:
bar:DK0 from: 30/09/2019 till: $bigcrunch $guide
bar:JL0 from: $bigbang till: 06/07/2020 $guide
bar:JL0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:JL0 from: 30/09/2020 till: $bigcrunch $guide
bar:TA0 from: $bigbang till: 06/07/2020 $guide
bar:TA0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:TA0 from: 30/09/2020 till: $bigcrunch $guide

# Academic years
LineData =
layer:back color:gray width:0.1
at:01/10/2010
at:01/10/2011
at:01/10/2012
at:01/10/2013
at:01/10/2014
at:01/10/2015
at:01/10/2016
at:01/10/2017
at:01/10/2018
at:01/10/2019
at:01/10/2020
at:01/10/2021
#######################################################
# Paste content of plotscript.txt until the above line.

# Updated on 11th April 2022.
# To edit, please refer to <code>ifs-thom/cbh31/groupwiki</code>.

</timeline>
</div>

= Present =
=== Head of group ===

Dr Alex Thom

=== Postdoctoral researchers ===

=== Graduate students ===

David Izuogu

Fabio Albertani

Andreea Filip

Kripa Panchagnula

Chiara Leadbeater

=== MPhil Students ===

Heng You Lee (Nicholas)

Brian Zhao

=== Part III students ===

=== Visiting Students ===

César Feniou

Tarik Benyahia

Lila Cadi Tazi

=== Undergraduate Students ===

Constance Kraay

= Past =

Elizabeth Guest

Hang Xu

Isha Janbakhsh

Minghao Zhang (Tiger)

Arta Safari

Dr Bang Cong Huynh

Raphael Colman

Dr Alberto Zoccante

Hamish Hiscock

Mark Chonofsky

Avir Patel

Dr William Vigor

James Bumby

Thomas Fuller

Simon Kilroy

Mark Driver

Tom Sayer

Dr James Farrell

Raz Benson

Seonghoon Choi

Benjamin Shires

Henry Tran

Alex Card

Dr Jonathan Kimmitt

Dr Salvatore Cardamone

Ruth Franklin

Letitia Birnoschi

Alex Gunasekera

Dr Charlie Scott

Dr Verena Neufeld

George Bateman

Dr Hugh Burton

Group List

2022-04-11T15:28:23Z

Zz376:

<div style="text-align: center;">
<timeline>
# Constants
Define $width = 1200
Define $height = 900
Define $headerx = -520 # -width/2 + 80
Define $headery = -3

Define $bigbang = 01/01/2010
Define $bigcrunch = 11/04/2022

# Canvas settings
ImageSize = width:$width height:$height
PlotArea = right:20 left:150 bottom:100 top:0
AlignBars = late
Legend = columns:4 left:220 top:50 columnwidth:160
DateFormat = dd/mm/yyyy
Period = from:$bigbang till:$bigcrunch
TimeAxis = orientation:horizontal

# Colors
Colors =
id:canvas value:gray(0.95) # background for whole image
id:bars value:white # background for bars
id:grid1 value:gray(0.6) # major grid
id:grid2 value:gray(0.85) # minor grid
id:gray value:gray(0.5) # for colophon

id:Leader value:rgb(0.501,0,0.125) legend:Group_leader
id:Postdoc value:rgb(0.231,0.278,0.968) legend:Postdoctoral_researcher
id:PhD value:rgb(0.192,0.470,0.450) legend:PhD_student
id:MPhil value:rgb(0.392,0.770,0.750) legend:MPhil_student
id:PartIII value:rgb(1,0.580,0.2) legend:Part_III_student
id:Visitor value:rgb(0.2,0.8,1) legend:Visiting_researcher
id:StudentVisitor value:rgb(0.968,0.231,0.294) legend:Visiting_student
id:Summer value:rgb(1,0.521,0.909) legend:Summer_intern
id:Undergrad value:rgb(1,0.821,0.969) legend:Undergraduate_student

# Grids
ScaleMajor = unit:year grid:grid1 increment:1 start:01/01/2010
ScaleMinor = unit:month grid:grid2 increment:1 start:01/01/2010

# Presets
Define $GroupLeader = color:Leader width:0.1in
Define $Postdoc = color:Postdoc width:0.1in
Define $PhD = color:PhD width:0.1in
Define $MPhil = color:MPhil width:0.1in
Define $PartIII = color:PartIII width:0.1in
Define $Visitor = color:Visitor width:0.1in
Define $StudentVisitor = color:StudentVisitor width:0.1in
Define $Summer = color:Summer width:0.1in
Define $Undergrad = color:Undergrad width:0.1in
Define $guide = color:gray width:0.1
Define $break = color:gray width:2.5 from:$bigbang till:$bigcrunch fontsize:M shift:($headerx,$headery) align:right

# Plotdata generated using Python 3
# Script and data can be found at `ifs-thom/cbh31/groupwiki`.
# Paste content of plotscript.txt after the next line.
######################################################
BarData =
# Current
bar:current
bar:AT0 text:Dr_Alex Thom
bar:DI0 text:_David Izuogu
bar:FA0 text:_Fabio Albertani
bar:MF0 text:_Maria-Andreea Filip
bar:KP0 text:_Kripa Panchagnula
bar:CL0 text:_Chiara Leadbeater
bar:BZ0 text:_Brian Zhao
bar:HYLN0 text:_Heng You Lee (Nicholas)
bar:IJ0 text:_Isha Janbakhsh
bar:LCT0 text:_Lila Cadi Tazi
bar:CK0 text:_Constance Kraay
# Past
bar:past
bar:AZ0 text:Dr_Alberto Zoccante
bar:WV0 text:Dr_William Vigor
bar:JK0 text:Dr_Jonathan Kimmitt
bar:SC0 text:Dr_Salvatore Cardamone
bar:RF0 text:_Ruth Franklin
bar:CS0 text:Dr_Charles Scott
bar:VN0 text:Dr_Verena Neufeld
bar:HB0 text:Dr_Hugh Burton
bar:BCH0 text:Dr_Bang C. Huynh
bar:HT0 text:_Henry Tran
bar:AC0 text:_Alexander Card
bar:AS0 text:_Arta Safari
bar:BS0 text:_Benjamin Shires
bar:SC1 text:_Seonghoon Choi
bar:LB0 text:_Letitia-Iona Birnoschi
bar:AG0 text:_Alexander Gunasekera
bar:GB0 text:_George Bateman
bar:EG0 text:_Elizabeth Guest
bar:HX0 text:_Hang Xu
bar:MZT0 text:_Minghao Zhang (Tiger)
bar:RC0 text:_Raphael Colman
bar:JF0 text:_James Farrell
bar:RDR0 text:Dr_Roberto Di Remigio
bar:TI0 text:_Tomohiro Ichiba
bar:RZ0 text:_Rhiannon Zarotiadis
bar:CF0 text:_César Feniou
bar:TB0 text:_Tarik Benyahia
bar:BM0 text:_Benjamin Mokhtar
bar:AB0 text:_Anna Bui
bar:ZW0 text:_Zian Wang
bar:RB0 text:_Raz Benson
bar:TS0 text:_Tom Sayer
bar:AP0 text:_Adam Prada
bar:JB0 text:_Jamie Buck
bar:KJ0 text:_Kris Jensen
bar:JE0 text:_Jiri Etrych
bar:IW0 text:_Ian Wu
bar:ZWR0 text:_Zhipeng Wang (Richard)
bar:DK0 text:_David Kovacs
bar:JL0 text:_Jimin Li
bar:TA0 text:_Toby Antipaas

PlotData =
align:center textcolor:black fontsize:S shift:(0,-5)

# Current
bar:current text:Current_members $break
bar:AT0 from: $bigbang till: 01/10/2010 $guide
bar:AT0 from: 01/10/2010 till: 11/04/2022 $GroupLeader text:
bar:AT0 from: 11/04/2022 till: $bigcrunch $guide
bar:DI0 from: $bigbang till: 09/10/2017 $guide
bar:DI0 from: 09/10/2017 till: 11/04/2022 $PhD text:
bar:DI0 from: 11/04/2022 till: $bigcrunch $guide
bar:FA0 from: $bigbang till: 01/10/2018 $guide
bar:FA0 from: 01/10/2018 till: 11/04/2022 $PhD text:
bar:FA0 from: 11/04/2022 till: $bigcrunch $guide
bar:MF0 from: $bigbang till: 01/08/2017 $guide
bar:MF0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:MF0 from: 30/09/2017 till: 01/10/2018 $guide
bar:MF0 from: 01/10/2018 till: 11/04/2022 $PhD text:
bar:MF0 from: 11/04/2022 till: $bigcrunch $guide
bar:KP0 from: $bigbang till: 12/08/2019 $guide
bar:KP0 from: 12/08/2019 till: 30/09/2019 $Summer text:
bar:KP0 from: 30/09/2019 till: 01/10/2019 $guide
bar:KP0 from: 01/10/2019 till: 30/06/2020 $PartIII text:
bar:KP0 from: 30/06/2020 till: 01/10/2020 $guide
bar:KP0 from: 01/10/2020 till: 11/04/2022 $PhD text:
bar:KP0 from: 11/04/2022 till: $bigcrunch $guide
bar:CL0 from: $bigbang till: 01/10/2021 $guide
bar:CL0 from: 01/10/2021 till: 11/04/2022 $PhD text:
bar:CL0 from: 11/04/2022 till: $bigcrunch $guide
bar:BZ0 from: $bigbang till: 15/07/2021 $guide
bar:BZ0 from: 15/07/2021 till: 30/09/2021 $Summer text:
bar:BZ0 from: 30/09/2021 till: 01/10/2021 $guide
bar:BZ0 from: 01/10/2021 till: 11/04/2022 $MPhil text:
bar:BZ0 from: 11/04/2022 till: $bigcrunch $guide
bar:HYLN0 from: $bigbang till: 29/07/2019 $guide
bar:HYLN0 from: 29/07/2019 till: 30/09/2019 $Summer text:
bar:HYLN0 from: 30/09/2019 till: 06/07/2020 $guide
bar:HYLN0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:HYLN0 from: 30/09/2020 till: 01/10/2020 $guide
bar:HYLN0 from: 01/10/2020 till: 30/06/2021 $Undergrad text:
bar:HYLN0 from: 30/06/2021 till: 15/07/2021 $guide
bar:HYLN0 from: 15/07/2021 till: 30/09/2021 $Summer text:
bar:HYLN0 from: 30/09/2021 till: 01/10/2021 $guide
bar:HYLN0 from: 01/10/2021 till: 11/04/2022 $MPhil text:
bar:HYLN0 from: 11/04/2022 till: $bigcrunch $guide
bar:IJ0 from: $bigbang till: 01/10/2020 $guide
bar:IJ0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:IJ0 from: 30/06/2021 till: 11/04/2022 $Undergrad text:
bar:IJ0 from: 11/04/2022 till: $bigcrunch $guide
bar:LCT0 from: $bigbang till: 08/02/2022 $guide
bar:LCT0 from: 08/02/2022 till: 11/04/2022 $Visitor text:
bar:LCT0 from: 11/04/2022 till: $bigcrunch $guide
bar:CK0 from: $bigbang till: 06/07/2020 $guide
bar:CK0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:CK0 from: 30/09/2020 till: 01/10/2020 $guide
bar:CK0 from: 01/10/2020 till: 11/04/2022 $Undergrad text:
bar:CK0 from: 11/04/2022 till: $bigcrunch $guide
# Past bar:past text:Past_members $break
bar:AZ0 from: $bigbang till: 15/08/2012 $guide
bar:AZ0 from: 15/08/2012 till: 14/08/2013 $Postdoc text:
bar:AZ0 from: 14/08/2013 till: $bigcrunch $guide
bar:WV0 from: $bigbang till: 01/10/2011 $guide
bar:WV0 from: 01/10/2011 till: 01/10/2015 $PhD text:Imperial College London
bar:WV0 from: 01/10/2015 till: 01/10/2016 $Postdoc text:
bar:WV0 from: 01/10/2016 till: $bigcrunch $guide
bar:JK0 from: $bigbang till: 02/11/2015 $guide
bar:JK0 from: 02/11/2015 till: 31/12/2017 $Postdoc text:
bar:JK0 from: 31/12/2017 till: $bigcrunch $guide
bar:SC0 from: $bigbang till: 01/10/2016 $guide
bar:SC0 from: 01/10/2016 till: 30/09/2018 $Postdoc text:
bar:SC0 from: 30/09/2018 till: $bigcrunch $guide
bar:RF0 from: $bigbang till: 01/10/2014 $guide
bar:RF0 from: 01/10/2014 till: 01/10/2017 $PhD text:
bar:RF0 from: 01/10/2017 till: $bigcrunch $guide
bar:CS0 from: $bigbang till: 01/10/2014 $guide
bar:CS0 from: 01/10/2014 till: 30/06/2015 $PartIII text:
bar:CS0 from: 30/06/2015 till: 05/09/2015 $guide
bar:CS0 from: 05/09/2015 till: 30/09/2019 $PhD text:
bar:CS0 from: 30/09/2019 till: $bigcrunch $guide
bar:VN0 from: $bigbang till: 05/10/2015 $guide
bar:VN0 from: 05/10/2015 till: 31/10/2019 $PhD text:
bar:VN0 from: 31/10/2019 till: $bigcrunch $guide
bar:HB0 from: $bigbang till: 01/07/2014 $guide
bar:HB0 from: 01/07/2014 till: 30/09/2014 $Summer text:
bar:HB0 from: 30/09/2014 till: 01/07/2015 $guide
bar:HB0 from: 01/07/2015 till: 30/09/2015 $Summer text:
bar:HB0 from: 30/09/2015 till: 26/09/2016 $guide
bar:HB0 from: 26/09/2016 till: 30/09/2020 $PhD text:
bar:HB0 from: 30/09/2020 till: $bigcrunch $guide
bar:BCH0 from: $bigbang till: 01/10/2016 $guide
bar:BCH0 from: 01/10/2016 till: 30/06/2017 $PartIII text:
bar:BCH0 from: 30/06/2017 till: 02/10/2017 $guide
bar:BCH0 from: 02/10/2017 till: 30/09/2021 $PhD text:
bar:BCH0 from: 30/09/2021 till: $bigcrunch $guide
bar:HT0 from: $bigbang till: 30/09/2016 $guide
bar:HT0 from: 30/09/2016 till: 17/08/2017 $MPhil text:
bar:HT0 from: 17/08/2017 till: $bigcrunch $guide
bar:AC0 from: $bigbang till: 05/10/2016 $guide
bar:AC0 from: 05/10/2016 till: 30/08/2017 $MPhil text:
bar:AC0 from: 30/08/2017 till: $bigcrunch $guide
bar:AS0 from: $bigbang till: 01/10/2020 $guide
bar:AS0 from: 01/10/2020 till: 30/09/2021 $MPhil text:
bar:AS0 from: 30/09/2021 till: $bigcrunch $guide
bar:BS0 from: $bigbang till: 04/10/2016 $guide
bar:BS0 from: 04/10/2016 till: 30/06/2017 $PartIII text:
bar:BS0 from: 30/06/2017 till: $bigcrunch $guide
bar:SC1 from: $bigbang till: 01/07/2016 $guide
bar:SC1 from: 01/07/2016 till: 30/09/2016 $Summer text:
bar:SC1 from: 30/09/2016 till: 04/10/2016 $guide
bar:SC1 from: 04/10/2016 till: 30/06/2017 $PartIII text:
bar:SC1 from: 30/06/2017 till: $bigcrunch $guide
bar:LB0 from: $bigbang till: 02/10/2017 $guide
bar:LB0 from: 02/10/2017 till: 30/06/2018 $PartIII text:
bar:LB0 from: 30/06/2018 till: $bigcrunch $guide
bar:AG0 from: $bigbang till: 01/10/2018 $guide
bar:AG0 from: 01/10/2018 till: 30/06/2019 $PartIII text:
bar:AG0 from: 30/06/2019 till: $bigcrunch $guide
bar:GB0 from: $bigbang till: 01/10/2019 $guide
bar:GB0 from: 01/10/2019 till: 30/06/2020 $PartIII text:
bar:GB0 from: 30/06/2020 till: $bigcrunch $guide
bar:EG0 from: $bigbang till: 06/07/2020 $guide
bar:EG0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:EG0 from: 30/09/2020 till: 01/10/2020 $guide
bar:EG0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:EG0 from: 30/06/2021 till: $bigcrunch $guide
bar:HX0 from: $bigbang till: 06/07/2020 $guide
bar:HX0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:HX0 from: 30/09/2020 till: 01/10/2020 $guide
bar:HX0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:HX0 from: 30/06/2021 till: $bigcrunch $guide
bar:MZT0 from: $bigbang till: 02/08/2019 $guide
bar:MZT0 from: 02/08/2019 till: 30/09/2019 $Summer text:
bar:MZT0 from: 30/09/2019 till: 20/07/2020 $guide
bar:MZT0 from: 20/07/2020 till: 30/09/2020 $Summer text:
bar:MZT0 from: 30/09/2020 till: 01/10/2020 $guide
bar:MZT0 from: 01/10/2020 till: 30/06/2021 $PartIII text:
bar:MZT0 from: 30/06/2021 till: $bigcrunch $guide
bar:RC0 from: $bigbang till: 18/08/2015 $guide
bar:RC0 from: 18/08/2015 till: 16/09/2015 $Visitor text:
bar:RC0 from: 16/09/2015 till: $bigcrunch $guide
bar:JF0 from: $bigbang till: 01/11/2015 $guide
bar:JF0 from: 01/11/2015 till: 17/10/2016 $Visitor text:
bar:JF0 from: 17/10/2016 till: $bigcrunch $guide
bar:RDR0 from: $bigbang till: 05/01/2018 $guide
bar:RDR0 from: 05/01/2018 till: 02/02/2018 $Visitor text:
bar:RDR0 from: 02/02/2018 till: $bigcrunch $guide
bar:TI0 from: $bigbang till: 16/04/2018 $guide
bar:TI0 from: 16/04/2018 till: 01/10/2018 $StudentVisitor text:
bar:TI0 from: 01/10/2018 till: $bigcrunch $guide
bar:RZ0 from: $bigbang till: 04/03/2019 $guide
bar:RZ0 from: 04/03/2019 till: 29/07/2019 $StudentVisitor text:
bar:RZ0 from: 29/07/2019 till: $bigcrunch $guide
bar:CF0 from: $bigbang till: 08/02/2021 $guide
bar:CF0 from: 08/02/2021 till: 31/08/2021 $StudentVisitor text:
bar:CF0 from: 31/08/2021 till: $bigcrunch $guide
bar:TB0 from: $bigbang till: 08/02/2021 $guide
bar:TB0 from: 08/02/2021 till: 31/08/2021 $StudentVisitor text:
bar:TB0 from: 31/08/2021 till: $bigcrunch $guide
bar:BM0 from: $bigbang till: 12/04/2021 $guide
bar:BM0 from: 12/04/2021 till: 30/09/2021 $StudentVisitor text:
bar:BM0 from: 30/09/2021 till: $bigcrunch $guide
bar:AB0 from: $bigbang till: 15/07/2021 $guide
bar:AB0 from: 15/07/2021 till: 30/09/2021 $Undergrad text:
bar:AB0 from: 30/09/2021 till: $bigcrunch $guide
bar:ZW0 from: $bigbang till: 15/07/2021 $guide
bar:ZW0 from: 15/07/2021 till: 30/09/2021 $Undergrad text:
bar:ZW0 from: 30/09/2021 till: $bigcrunch $guide
bar:RB0 from: $bigbang till: 01/08/2016 $guide
bar:RB0 from: 01/08/2016 till: 30/09/2016 $Summer text:
bar:RB0 from: 30/09/2016 till: $bigcrunch $guide
bar:TS0 from: $bigbang till: 01/08/2016 $guide
bar:TS0 from: 01/08/2016 till: 30/09/2016 $Summer text:
bar:TS0 from: 30/09/2016 till: $bigcrunch $guide
bar:AP0 from: $bigbang till: 01/08/2017 $guide
bar:AP0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:AP0 from: 30/09/2017 till: $bigcrunch $guide
bar:JB0 from: $bigbang till: 01/08/2017 $guide
bar:JB0 from: 01/08/2017 till: 30/09/2017 $Summer text:
bar:JB0 from: 30/09/2017 till: $bigcrunch $guide
bar:KJ0 from: $bigbang till: 07/08/2017 $guide
bar:KJ0 from: 07/08/2017 till: 29/09/2017 $Summer text:
bar:KJ0 from: 29/09/2017 till: $bigcrunch $guide
bar:JE0 from: $bigbang till: 25/06/2018 $guide
bar:JE0 from: 25/06/2018 till: 04/09/2018 $Summer text:
bar:JE0 from: 04/09/2018 till: $bigcrunch $guide
bar:IW0 from: $bigbang till: 07/08/2018 $guide
bar:IW0 from: 07/08/2018 till: 30/09/2018 $Summer text:
bar:IW0 from: 30/09/2018 till: $bigcrunch $guide
bar:ZWR0 from: $bigbang till: 03/09/2018 $guide
bar:ZWR0 from: 03/09/2018 till: 01/10/2018 $Summer text:
bar:ZWR0 from: 01/10/2018 till: $bigcrunch $guide
bar:DK0 from: $bigbang till: 29/07/2019 $guide
bar:DK0 from: 29/07/2019 till: 30/09/2019 $Summer text:
bar:DK0 from: 30/09/2019 till: $bigcrunch $guide
bar:JL0 from: $bigbang till: 06/07/2020 $guide
bar:JL0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:JL0 from: 30/09/2020 till: $bigcrunch $guide
bar:TA0 from: $bigbang till: 06/07/2020 $guide
bar:TA0 from: 06/07/2020 till: 30/09/2020 $Summer text:
bar:TA0 from: 30/09/2020 till: $bigcrunch $guide

# Academic years
LineData =
layer:back color:gray width:0.1
at:01/10/2010
at:01/10/2011
at:01/10/2012
at:01/10/2013
at:01/10/2014
at:01/10/2015
at:01/10/2016
at:01/10/2017
at:01/10/2018
at:01/10/2019
at:01/10/2020
at:01/10/2021
#######################################################
# Paste content of plotscript.txt until the above line.

# Updated on 11th April 2022.
# To edit, please refer to <code>ifs-thom/cbh31/groupwiki</code>.

</timeline>
</div>

= Present =
=== Head of group ===

Dr Alex Thom

=== Postdoctoral researchers ===

=== Graduate students ===

David Izuogu

Fabio Albertani

Andreea Filip

Kripa Panchagnula

Chiara Leadbeater

=== MPhil Students ===

Heng You Lee (Nicholas)

Brian Zhao

=== Part III students ===

=== Visiting Students ===

César Feniou

Tarik Benyahia

Lila Cadi Tazi

=== Undergraduate Students ===

Constance Kraay

= Past =

Elizabeth Guest

Hang Xu

Isha Janbakhsh

Minghao Zhang (Tiger)

Arta Safari

Dr Bang Cong Huynh

Raphael Colman

Dr Alberto Zoccante

Hamish Hiscock

Mark Chonofsky

Avir Patel

Dr William Vigor

James Bumby

Thomas Fuller

Simon Kilroy

Mark Driver

Tom Sayer

Dr James Farrell

Raz Benson

Seonghoon Choi

Benjamin Shires

Henry Tran

Alex Card

Dr Jonathan Kimmitt

Dr Salvatore Cardamone

Ruth Franklin

Letitia Birnoschi

Alex Gunasekera

Dr Charlie Scott

Dr Verena Neufeld

George Bateman

Dr Hugh Burton

Main Page

2022-03-30T14:42:59Z

Zz376:

<div style="text-align: center;">
''
# _________ # ___ ___ # ______ # ___ __ __ # # _______ # ______ # ______ # __ __ # ______ #
#/________/\ #/__/\ /__/\ #/_____/\ #/__//_//_/\ # #/______/\ #/_____/\ #/_____/\ #/_/\/_/\ #/_____/\ #
#\__.::.__\/ #\::\ \\ \ \ #\:::_ \ \ #\::\| \| \ \ # #\::::__\/__ #\:::_ \ \ #\:::_ \ \ #\:\ \:\ \ #\:::_ \ \ #
# \::\ \ # \::\/_\ .\ \ # \:\ \ \ \ # \:. \ \ # # \:\ /____/\ # \:(_) ) )_ # \:\ \ \ \ # \:\ \:\ \ # \:(_) \ \ #
# \::\ \ # \:: ___::\ \ # \:\ \ \ \ # \:.\-/\ \ \ # # \:\\_ _\/ # \: __ `\ \ # \:\ \ \ \ # \:\ \:\ \ # \: ___\/ #
# \::\ \ # \: \ \\::\ \# \:\_\ \ \ # \. \ \ \ \# # \:\_\ \ \ # \ \ `\ \ \ # \:\_\ \ \ # \:\_\:\ \ # \ \ \ #
# \__\/ # \__\/ \::\/# \_____\/ # \__\/ \__\/# # \_____\/ # \_\/ \_\/ # \_____\/ # \_____\/ # \_\/ #
# # # # # # # # # # #
''
</div>

Hello, Guten Abend, and Bienvenue to the new Thom Group Wiki. (Apparently evenings are good times to read the Wiki.)

In this Wiki you can find various pieces of useful information, such as when group meetings are, who is going to bring cake, how to run a particular calculation or perform a certain computer trick, who's using which computer in the group, and so on. You can also see how fun we are as a group by looking at our various photos.

=Group Calendar=
https://calendar.google.com/calendar/render?mode=day&date=20160601T153539#main_7%7Cday-1+23745+23745+23745

{{Special:IframePage}}

=Group Meetings=

Past Group Meetings [[Past Group Meetings|here]].

===Lent 2022===

{| class="wikitable"
! style="width: 20ex;" |'''Date''' || style="width: 18ex;" | '''Talk''' || style="width: 18ex;" | '''Cake'''
|-
|24th January || Fabio || Andreea
|-
|7th February || Andreea || Kripa
|-
|21st February|| Nick || Brian
|-
|21st March|| Brian || Chiara
|}

=Journal Club=

{| class="wikitable"
! style="width: 20ex;" |'''Date''' || style="width: 18ex;" | '''Contributor''' || style="width: 36ex;" | '''Paper'''
|-
| 8 Oct 2021 || Kripa || [https://arxiv.org/pdf/1712.01815.pdf/ Mastering Chess and Shogi by Self-Play with a General Reinforcement Learning Algorithm]
|-
| 5 Nov 2021 || Brian || [https://pubs.acs.org/doi/10.1021/acs.jpca.1c05962 Neat, Simple and Wrong: Debunking Electrostatic Fallacies Regarding Noncovalent Interactions]
|-
| || Andreea ||
|-
| 11 Feb 2022 || Nick || [https://www.nature.com/articles/s41598-021-00053-8 Mapping the NFT revolution: market trends, trade networks, and visual features]
|-
| 11 Mar 2022 || Andreea || [https://link.springer.com/article/10.1007/BF02650179 Simulating physics with computers]
|}

=Summer 'Interns'=
Past Summer Interns [[Past Summer Interns|here]].
==2021==
{| class="wikitable"
! style="width: 18ex;" |'''Name''' || style="width: 18ex;" | '''Dates''' || style="width: 25ex;" | '''Project'''|| style="width: 18ex;" | '''Machine'''
|-
| Anna Bui || 19th Jul - 17th Sep || NOCI Carbon Capture || hypatia
|-
| Zian Wang || 19th Jul - 17th Sep || NOCI Photochemistry || obsidian
|-
| Brian Zhao || 19th Jul - 17th Sep || Stochastic Coupled Cluster || gritstone
|-
| Nick Lee || 19th Jul - 17th Sep || NOCI Singlet Fission || moonraker
|}

= [[Group_List | Group List]] =
The full timeline of all current and past group members is available [https://wikis.ch.cam.ac.uk/thom/wiki/index.php/Group_List here].

An up to date list of group members is also available [http://www.ch.cam.ac.uk/group/thom here].

[[File:AJWT_group_8_21_taken_by_Nathan Pitt_©University_of_Cambridge_1274_M.jpg|1000px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, August 2021]]
<div style="text-align: center;">
Front row, left to right: Anna Bui, Brian Zhao, Bang C. Huynh, Arta Safari, Maria-Andreea Filip<br>
Back row, right to left: David Izuogu, Kripa Panchagnula, Zian Wang, Dr Alex Thom<br>
Not in picture: Fabio Albertani, Nicholas Lee, Tarik Benyahia, César Feniou, Benjamin Mokhtar
</div>

[[File:AJWT_group_photo_2_5_19-4926_taken_by_Nathan_Pitt_University_of_Cambridge-tighter.jpg|500px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, May 2019]]
[[File:AJWT_Group_photo-5470_taken_by_Nathan_Pitt_University_of_Cambridge.jpg|500px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, November 2017]]

= [[Computer_and_Storage_List | Computing Resources]] =
- Group computers available.

- Clusters available.

- Storage available.

= Computing Setup Guide =
Anaconda takes up a lot of space on /home so it's worth running

mv ~/.conda /scratch/$USER/.conda
ln -s /scratch/$USER/.conda ~/.conda

= [[Introduction | Introduction to basic shell commands]] =
- There are a number of tutorials available which document basic operations that are useful including:

# General bash commands
# Setting up cygwin
# Setting up [https://git-scm.com/book/en/v2/Git-on-the-Server-Generating-Your-SSH-Public-Key ssh keys] and general bash commands what are helpful
# Setting up ssh config files
# using [[GIT]]
# Useful cerebro queue commands
# Some [[vim]] tidbits

Currently undergoing construction.

= How to connect to department machines =

'''On Mac/WSL:'''

# Check you have an Admitto account and collect your password from https://www.ch.cam.ac.uk/computing/admitto-service
# In the terminal run the command ''ssh -X crsid@citadel.ch.cam.ac.uk''
# When prompted input your Admitto username (crsid) and password
# Once this has worked run the command ''ssh -X crsid@machinename'' in the terminal to log into a particular machine

Set up logging in without a password:

# Generate an ssh key by running the command ''ssh-keygen'' in the terminal, as described in detail in the section "Introduction to basic shell commands"
# Use ''cd ~/.ssh'' to navigate to the directory holding the keys, and copy the text from the file "id_rsa.pub" beginning with ssh-rsa. This is your public ssh key
# Log into the department citadel machine, and create / navigate to a directory called .ssh
# Use ''chmod 700 .ssh'' to set permissions for the directory
# Input ''vi authorized_keys'' to open up the vi text editor. Press i, then paste in your public ssh key. Press escape, then type '':wq'' and press enter to write and quit the editor
# Log into the particular machine you want to ssh to, and repeat steps 3 to 5
# Exit back to your machine and navigate to the home directory
# Input ''vi .ssh/config'' to open the vi text editor. Press i, then paste in the following, with your crsid and machine name in the places given:
Host citadel
User crsid
Hostname citadel.ch.cam.ac.uk
ForwardAgent yes
ProxyCommand none
Host machinename
Hostname machinename
ProxyCommand ssh citadel -W %h:%p
User crsid
ForwardAgent yes
ServerAliveInterval 60
ServerAliveCountMax 10

Press escape, then input '':wq'' followed by enter to exit the editor.
You can now log straight into citadel with ''ssh citadel'' or straight into your machine with ''ssh machinename''. The last two commands stop the ssh being killed if you are idle for too long. The ''ServerAliveInterval'' is how many seconds to ping a null packet, and the ''ServerAliveCountMax'' are how many consecutive times it needs to fail for the ssh to be killed.

= Useful Software =
# Using [[QChem]]
# Using [[QCMagic]]
# [[SimpleDMC]]
# [[MRCC]]
# [[GAMESS]]

= Useful Information =
# Guidelines on [[Code Review]]
# How to do things relating to [[HANDE]]
# How to run PySCF or other [[Python software on Archer]]
# How to run QChem on [[darwin]]
# Where to get [[Travel Money]]
# Backed-up [[Storage]]
# [[How to get IQMol to run a local version of Q-Chem via SSH]]
# [[Slow ubuntu dash]]
# [[Persistent X]] sessions for remote working
# [[Paper submission]]
# [[Getting Started with cerebro]]

= [[Archiving_data | Archiving data for the university repository]] =

= [[Website_to_do | To-do list for the Thom Group Website]] =

= [[Group_activities | Group Activities]] =

= To-do list for the Wiki=

- A pretty picture

- A "How to:" page on setting up cygwin, ssh keys and general bash commands what are helpful

- A "How to:" page on using qchem

- A Pretty picture for the $wgLogo

Main Page

2022-03-28T12:56:34Z

Zz376: Add past papers

<div style="text-align: center;">
''
# _________ # ___ ___ # ______ # ___ __ __ # # _______ # ______ # ______ # __ __ # ______ #
#/________/\ #/__/\ /__/\ #/_____/\ #/__//_//_/\ # #/______/\ #/_____/\ #/_____/\ #/_/\/_/\ #/_____/\ #
#\__.::.__\/ #\::\ \\ \ \ #\:::_ \ \ #\::\| \| \ \ # #\::::__\/__ #\:::_ \ \ #\:::_ \ \ #\:\ \:\ \ #\:::_ \ \ #
# \::\ \ # \::\/_\ .\ \ # \:\ \ \ \ # \:. \ \ # # \:\ /____/\ # \:(_) ) )_ # \:\ \ \ \ # \:\ \:\ \ # \:(_) \ \ #
# \::\ \ # \:: ___::\ \ # \:\ \ \ \ # \:.\-/\ \ \ # # \:\\_ _\/ # \: __ `\ \ # \:\ \ \ \ # \:\ \:\ \ # \: ___\/ #
# \::\ \ # \: \ \\::\ \# \:\_\ \ \ # \. \ \ \ \# # \:\_\ \ \ # \ \ `\ \ \ # \:\_\ \ \ # \:\_\:\ \ # \ \ \ #
# \__\/ # \__\/ \::\/# \_____\/ # \__\/ \__\/# # \_____\/ # \_\/ \_\/ # \_____\/ # \_____\/ # \_\/ #
# # # # # # # # # # #
''
</div>

Hello, Guten Abend, and Bienvenue to the new Thom Group Wiki. (Apparently evenings are good times to read the Wiki.)

In this Wiki you can find various pieces of useful information, such as when group meetings are, who is going to bring cake, how to run a particular calculation or perform a certain computer trick, who's using which computer in the group, and so on. You can also see how fun we are as a group by looking at our various photos.

=Group Calendar=
https://calendar.google.com/calendar/render?mode=day&date=20160601T153539#main_7%7Cday-1+23745+23745+23745

{{Special:IframePage}}

=Group Meetings=

Past Group Meetings [[Past Group Meetings|here]].

===Lent 2022===

{| class="wikitable"
! style="width: 20ex;" |'''Date''' || style="width: 18ex;" | '''Talk''' || style="width: 18ex;" | '''Cake'''
|-
|24th January || Fabio || Andreea
|-
|7th February || Andreea || Kripa
|-
|21st February|| Nick || Brian
|-
|21st March|| Brian || Chiara
|}

=Journal Club=

{| class="wikitable"
! style="width: 20ex;" |'''Date''' || style="width: 18ex;" | '''Contributor''' || style="width: 36ex;" | '''Paper'''
|-
| || Kripa ||
|-
| 5 Nov 2021 || Brian || [https://pubs.acs.org/doi/10.1021/acs.jpca.1c05962 Neat, Simple and Wrong: Debunking Electrostatic Fallacies Regarding Noncovalent Interactions]
|-
| || Andreea ||
|-
| 11 Feb 2022 || Nick || [https://www.nature.com/articles/s41598-021-00053-8 Mapping the NFT revolution: market trends, trade networks, and visual features]
|-
| 11 Mar 2022 || Andreea || [https://link.springer.com/article/10.1007/BF02650179 Simulating physics with computers]
|}

=Summer 'Interns'=
Past Summer Interns [[Past Summer Interns|here]].
==2021==
{| class="wikitable"
! style="width: 18ex;" |'''Name''' || style="width: 18ex;" | '''Dates''' || style="width: 25ex;" | '''Project'''|| style="width: 18ex;" | '''Machine'''
|-
| Anna Bui || 19th Jul - 17th Sep || NOCI Carbon Capture || hypatia
|-
| Zian Wang || 19th Jul - 17th Sep || NOCI Photochemistry || obsidian
|-
| Brian Zhao || 19th Jul - 17th Sep || Stochastic Coupled Cluster || gritstone
|-
| Nick Lee || 19th Jul - 17th Sep || NOCI Singlet Fission || moonraker
|}

= [[Group_List | Group List]] =
The full timeline of all current and past group members is available [https://wikis.ch.cam.ac.uk/thom/wiki/index.php/Group_List here].

An up to date list of group members is also available [http://www.ch.cam.ac.uk/group/thom here].

[[File:AJWT_group_8_21_taken_by_Nathan Pitt_©University_of_Cambridge_1274_M.jpg|1000px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, August 2021]]
<div style="text-align: center;">
Front row, left to right: Anna Bui, Brian Zhao, Bang C. Huynh, Arta Safari, Maria-Andreea Filip<br>
Back row, right to left: David Izuogu, Kripa Panchagnula, Zian Wang, Dr Alex Thom<br>
Not in picture: Fabio Albertani, Nicholas Lee, Tarik Benyahia, César Feniou, Benjamin Mokhtar
</div>

[[File:AJWT_group_photo_2_5_19-4926_taken_by_Nathan_Pitt_University_of_Cambridge-tighter.jpg|500px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, May 2019]]
[[File:AJWT_Group_photo-5470_taken_by_Nathan_Pitt_University_of_Cambridge.jpg|500px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, November 2017]]

= [[Computer_and_Storage_List | Computing Resources]] =
- Group computers available.

- Clusters available.

- Storage available.

= Computing Setup Guide =
Anaconda takes up a lot of space on /home so it's worth running

mv ~/.conda /scratch/$USER/.conda
ln -s /scratch/$USER/.conda ~/.conda

= [[Introduction | Introduction to basic shell commands]] =
- There are a number of tutorials available which document basic operations that are useful including:

# General bash commands
# Setting up cygwin
# Setting up [https://git-scm.com/book/en/v2/Git-on-the-Server-Generating-Your-SSH-Public-Key ssh keys] and general bash commands what are helpful
# Setting up ssh config files
# using [[GIT]]
# Useful cerebro queue commands
# Some [[vim]] tidbits

Currently undergoing construction.

= How to connect to department machines =

'''On Mac/WSL:'''

# Check you have an Admitto account and collect your password from https://www.ch.cam.ac.uk/computing/admitto-service
# In the terminal run the command ''ssh -X crsid@citadel.ch.cam.ac.uk''
# When prompted input your Admitto username (crsid) and password
# Once this has worked run the command ''ssh -X crsid@machinename'' in the terminal to log into a particular machine

Set up logging in without a password:

# Generate an ssh key by running the command ''ssh-keygen'' in the terminal, as described in detail in the section "Introduction to basic shell commands"
# Use ''cd ~/.ssh'' to navigate to the directory holding the keys, and copy the text from the file "id_rsa.pub" beginning with ssh-rsa. This is your public ssh key
# Log into the department citadel machine, and create / navigate to a directory called .ssh
# Use ''chmod 700 .ssh'' to set permissions for the directory
# Input ''vi authorized_keys'' to open up the vi text editor. Press i, then paste in your public ssh key. Press escape, then type '':wq'' and press enter to write and quit the editor
# Log into the particular machine you want to ssh to, and repeat steps 3 to 5
# Exit back to your machine and navigate to the home directory
# Input ''vi .ssh/config'' to open the vi text editor. Press i, then paste in the following, with your crsid and machine name in the places given:
Host citadel
User crsid
Hostname citadel.ch.cam.ac.uk
ForwardAgent yes
ProxyCommand none
Host machinename
Hostname machinename
ProxyCommand ssh citadel -W %h:%p
User crsid
ForwardAgent yes
ServerAliveInterval 60
ServerAliveCountMax 10

Press escape, then input '':wq'' followed by enter to exit the editor.
You can now log straight into citadel with ''ssh citadel'' or straight into your machine with ''ssh machinename''. The last two commands stop the ssh being killed if you are idle for too long. The ''ServerAliveInterval'' is how many seconds to ping a null packet, and the ''ServerAliveCountMax'' are how many consecutive times it needs to fail for the ssh to be killed.

= Useful Software =
# Using [[QChem]]
# Using [[QCMagic]]
# [[SimpleDMC]]
# [[MRCC]]
# [[GAMESS]]

= Useful Information =
# Guidelines on [[Code Review]]
# How to do things relating to [[HANDE]]
# How to run PySCF or other [[Python software on Archer]]
# How to run QChem on [[darwin]]
# Where to get [[Travel Money]]
# Backed-up [[Storage]]
# [[How to get IQMol to run a local version of Q-Chem via SSH]]
# [[Slow ubuntu dash]]
# [[Persistent X]] sessions for remote working
# [[Paper submission]]
# [[Getting Started with cerebro]]

= [[Archiving_data | Archiving data for the university repository]] =

= [[Website_to_do | To-do list for the Thom Group Website]] =

= [[Group_activities | Group Activities]] =

= To-do list for the Wiki=

- A pretty picture

- A "How to:" page on setting up cygwin, ssh keys and general bash commands what are helpful

- A "How to:" page on using qchem

- A Pretty picture for the $wgLogo

GAMESS

2022-03-01T13:58:17Z

Zz376:

= Obtaining GAMESS =
You can request for the latest version of GAMESS for free [https://www.msg.chem.iastate.edu/gamess/download.html here].

= Compilation =
GAMESS has an unusual but straightforward system for compiling: untar the archive and run the <code>./configure</code> script, and answer all the questions. For the most basic installation, choose <code>socket</code> for the parallelisation. The script will ask if you want to install a number of packages, and they are all completely optional.

After the configuration, do '''not''' follow <code>machines/readme.unix</code> but instead follow the instructions in <code>./README.md</code>, i.e., run <code>make ddi</code>, <code>make modules</code> (if not using libxc), and then <code>make -j${nproc}</code>.

= Running GAMESS =
== Set up running script ==
After a successful compilation and linking, you should see the script <code>./rungms</code> appear in the GAMESS root directory. You need to edit this file, specifically the first four lines after the comments. You should create two directories, <code>restart</code> and <code>userscr</code>, and point the script to them, and also set <code>GMSPATH</code> to the actual installation location.

After all this, you can run GAMESS by invoking
<pre>
rungms [input_file] 00 1 1 1
</pre>
where <code>00</code> is the version number you'll have specified in the configuration stage, and the three 1's are to do with parallelisation options, here we run the most basic serial version.

== Input file ==
You can find example input files under <code>./tests/</code>, and the complete documentation [https://www.msg.chem.iastate.edu/gamess/GAMESS_Manual/docs-input.txt here].

=== Geometry ===
The default geometry specification is by only specifying symmetrically unique atoms, but you can also use cartesian and Z matrix format. This is controlled by a <code>$contrl</code> group keyword.

Documentation on point group symmetry can be found by searching <code>point group</code> in the documentation. Briefly, C2v is <code>cnv 2</code> and D_infh, despite their advice to use <code>dnh 4</code>, you should use <code>dnh 2</code>, otherwise results won't agree with other packages.

=== Consistency with other packages ===
GAMESS also freezes core electrons in post-HF methods by default, and this may lead to slightly different results compared to other programmes. To turn it off in coupled-cluster for example, add the <code>ncore=0</code> keyword in the <code>$CCINP</code> group.

=== Basis sets ===
GAMESS doesn't use standard basis names, to find out the internal names, search <code>$BASIS</code> in the documentation above. Specifically, it doesn't have a lot of the def2 family of basis sets. You can paste the basis sets into the input file from [https://www.basissetexchange.org/ Basis Set Exchange], but this requires that you use their own geometry specification standards (symmetrically unique atoms).

=== Sample input file ====
Finally, an example input for a water molecule at 1.6 A bond length and 104.45 bond angle with a restricted HF reference at cc-pVDZ/CR-CCSD(T) level is given below:
<pre>
$contrl scftyp=rhf coord=zmt runtyp=energy units=angs cctyp=cr-cc ispher=1 $end
$system mwords=100 memddi=500 $end
$guess guess=huckel $end
$ccinp maxcc=100 ncore=0 $end
$basis gbasis=ccd $end
$data

cnv 2

O
H 1 1.6
H 1 1.6 2 104.45
$end
</pre>
All keywords are case insensitive. Note the single whitespace in front of each keyword group, which seems to be important..

= Issues with its coupled cluster modules =
GAMESS implements a great variety of coupled cluster methods, including the renormalised and the completely renormalised CCSD(T) and [T]. The reference paper for all of these methods (CCSD, CCSD(T)/[T], (C)RCCSD(T)/[T]) is found [https://doi.org/10.1016/S0010-4655(02)00598-2 here]. Unfortunately if you ever tried to code these equations up from scratch yourself, you'll find that they're wrong. After extensive debugging, we found that there are two typos in Table 1 defining the intermediates needed in the CCSD amplitude update equations:

[[File:Piecuch_ccsd_typo.png]]

Main Page

2022-03-01T13:51:13Z

Zz376: /* Useful Software */ add gamess

<div style="text-align: center;">
''
# _________ # ___ ___ # ______ # ___ __ __ # # _______ # ______ # ______ # __ __ # ______ #
#/________/\ #/__/\ /__/\ #/_____/\ #/__//_//_/\ # #/______/\ #/_____/\ #/_____/\ #/_/\/_/\ #/_____/\ #
#\__.::.__\/ #\::\ \\ \ \ #\:::_ \ \ #\::\| \| \ \ # #\::::__\/__ #\:::_ \ \ #\:::_ \ \ #\:\ \:\ \ #\:::_ \ \ #
# \::\ \ # \::\/_\ .\ \ # \:\ \ \ \ # \:. \ \ # # \:\ /____/\ # \:(_) ) )_ # \:\ \ \ \ # \:\ \:\ \ # \:(_) \ \ #
# \::\ \ # \:: ___::\ \ # \:\ \ \ \ # \:.\-/\ \ \ # # \:\\_ _\/ # \: __ `\ \ # \:\ \ \ \ # \:\ \:\ \ # \: ___\/ #
# \::\ \ # \: \ \\::\ \# \:\_\ \ \ # \. \ \ \ \# # \:\_\ \ \ # \ \ `\ \ \ # \:\_\ \ \ # \:\_\:\ \ # \ \ \ #
# \__\/ # \__\/ \::\/# \_____\/ # \__\/ \__\/# # \_____\/ # \_\/ \_\/ # \_____\/ # \_____\/ # \_\/ #
# # # # # # # # # # #
''
</div>

Hello, Guten Abend, and Bienvenue to the new Thom Group Wiki. (Apparently evenings are good times to read the Wiki.)

In this Wiki you can find various pieces of useful information, such as when group meetings are, who is going to bring cake, how to run a particular calculation or perform a certain computer trick, who's using which computer in the group, and so on. You can also see how fun we are as a group by looking at our various photos.

=Group Calendar=
https://calendar.google.com/calendar/render?mode=day&date=20160601T153539#main_7%7Cday-1+23745+23745+23745

{{Special:IframePage}}

=Group Meetings=

Past Group Meetings [[Past Group Meetings|here]].

===Lent 2022===

{| class="wikitable"
! style="width: 20ex;" |'''Date''' || style="width: 18ex;" | '''Talk''' || style="width: 18ex;" | '''Cake'''
|-
|24th January || Fabio || Andreea
|-
|7th February || Andreea || Kripa
|-
|21st February|| Nick || Brian
|-
|21st March|| Brian || Chiara
|}

=Summer 'Interns'=
Past Summer Interns [[Past Summer Interns|here]].
==2021==
{| class="wikitable"
! style="width: 18ex;" |'''Name''' || style="width: 18ex;" | '''Dates''' || style="width: 25ex;" | '''Project'''|| style="width: 18ex;" | '''Machine'''
|-
| Anna Bui || 19th Jul - 17th Sep || NOCI Carbon Capture || hypatia
|-
| Zian Wang || 19th Jul - 17th Sep || NOCI Photochemistry || obsidian
|-
| Brian Zhao || 19th Jul - 17th Sep || Stochastic Coupled Cluster || gritstone
|-
| Nick Lee || 19th Jul - 17th Sep || NOCI Singlet Fission || moonraker
|}

= [[Group_List | Group List]] =
The full timeline of all current and past group members is available [https://wikis.ch.cam.ac.uk/thom/wiki/index.php/Group_List here].

An up to date list of group members is also available [http://www.ch.cam.ac.uk/group/thom here].

[[File:AJWT_group_8_21_taken_by_Nathan Pitt_©University_of_Cambridge_1274_M.jpg|1000px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, August 2021]]
<div style="text-align: center;">
Front row, left to right: Anna Bui, Brian Zhao, Bang C. Huynh, Arta Safari, Maria-Andreea Filip<br>
Back row, right to left: David Izuogu, Kripa Panchagnula, Zian Wang, Dr Alex Thom<br>
Not in picture: Fabio Albertani, Nicholas Lee, Tarik Benyahia, César Feniou, Benjamin Mokhtar
</div>

[[File:AJWT_group_photo_2_5_19-4926_taken_by_Nathan_Pitt_University_of_Cambridge-tighter.jpg|500px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, May 2019]]
[[File:AJWT_Group_photo-5470_taken_by_Nathan_Pitt_University_of_Cambridge.jpg|500px|thumb|center|Thom Group photo - taken by Nathan Pitt, ©University of Cambridge, November 2017]]

= [[Computer_List | Computer List]] =
- Group computers available.

= [[Introduction | Introduction to basic shell commands]] =
- There are a number of tutorials available which document basic operations that are useful including:

# General bash commands
# Setting up cygwin
# Setting up [https://git-scm.com/book/en/v2/Git-on-the-Server-Generating-Your-SSH-Public-Key ssh keys] and general bash commands what are helpful
# Setting up ssh config files
# using [[GIT]]
# Useful cerebro queue commands
# Some [[vim]] tidbits

Currently undergoing construction.

= How to connect to department machines =

'''On Mac/WSL:'''

# Check you have an Admitto account and collect your password from https://www.ch.cam.ac.uk/computing/admitto-service
# In the terminal run the command ''ssh -X crsid@citadel.ch.cam.ac.uk''
# When prompted input your Admitto username (crsid) and password
# Once this has worked run the command ''ssh -X crsid@machinename'' in the terminal to log into a particular machine

Set up logging in without a password:

# Generate an ssh key by running the command ''ssh-keygen'' in the terminal, as described in detail in the section "Introduction to basic shell commands"
# Use ''cd ~/.ssh'' to navigate to the directory holding the keys, and copy the text from the file "id_rsa.pub" beginning with ssh-rsa. This is your public ssh key
# Log into the department citadel machine, and create / navigate to a directory called .ssh
# Use ''chmod 700 .ssh'' to set permissions for the directory
# Input ''vi authorized_keys'' to open up the vi text editor. Press i, then paste in your public ssh key. Press escape, then type '':wq'' and press enter to write and quit the editor
# Log into the particular machine you want to ssh to, and repeat steps 3 to 5
# Exit back to your machine and navigate to the home directory
# Input ''vi .ssh/config'' to open the vi text editor. Press i, then paste in the following, with your crsid and machine name in the places given:
Host citadel
User crsid
Hostname citadel.ch.cam.ac.uk
ForwardAgent yes
ProxyCommand none
Host machinename
Hostname machinename
ProxyCommand ssh citadel -W %h:%p
User crsid
ForwardAgent yes
ServerAliveInterval 60
ServerAliveCountMax 10

Press escape, then input '':wq'' followed by enter to exit the editor.
You can now log straight into citadel with ''ssh citadel'' or straight into your machine with ''ssh machinename''. The last two commands stop the ssh being killed if you are idle for too long. The ''ServerAliveInterval'' is how many seconds to ping a null packet, and the ''ServerAliveCountMax'' are how many consecutive times it needs to fail for the ssh to be killed.

= Useful Software =
# Using [[QChem]]
# Using [[QCMagic]]
# [[SimpleDMC]]
# [[MRCC]]
# [[GAMESS]]

= Useful Information =
# Guidelines on [[Code Review]]
# How to do things relating to [[HANDE]]
# How to run PySCF or other [[Python software on Archer]]
# How to run QChem on [[darwin]]
# Where to get [[Travel Money]]
# Backed-up [[Storage]]
# [[How to get IQMol to run a local version of Q-Chem via SSH]]
# [[Slow ubuntu dash]]
# [[Persistent X]] sessions for remote working
# [[Paper submission]]
# [[Getting Started with cerebro]]

= [[Archiving_data | Archiving data for the university repository]] =

= [[Website_to_do | To-do list for the Thom Group Website]] =

= [[Group_activities | Group Activities]] =

= To-do list for the Wiki=

- A pretty picture

- A "How to:" page on setting up cygwin, ssh keys and general bash commands what are helpful

- A "How to:" page on using qchem

- A Pretty picture for the $wgLogo

GAMESS

2022-03-01T13:50:49Z

Zz376: Create GAMESS page

= Obtaining GAMESS =
You can request for the latest version of GAMESS for free [https://www.msg.chem.iastate.edu/gamess/download.html here].

= Compilation =
GAMESS has an unusual but straightforward system for compiling: untar the archive and run the <code>./configure</code> script, and answer all the questions. For the most basic installation, choose <code>socket</code> for the parallelisation. The script will ask if you want to install a number of packages, and they are all completely optional.

After the configuration, do '''not''' follow <code>machines/readme.unix</code> but instead follow the instructions in <code>./README.md</code>, i.e., run <code>make ddi</code>, <code>make modules</code> (if not using libxc), and then <code>make -j${nproc}</code>.

= Running GAMESS =
After a successful compilation and linking, you should see the script <code>./rungms</code> appear in the GAMESS root directory. You need to edit this file, specifically the first four lines after the comments. You should create two directories, <code>restart</code> and <code>userscr</code>, and point the script to them, and also set <code>GMSPATH</code> to the actual installation location.

After all this, you can run GAMESS by invoking
<pre>
rungms [input_file] 00 1 1 1
</pre>
where <code>00</code> is the version number you'll have specified in the configuration stage, and the three 1's are to do with parallelisation options, here we run the most basic serial version.

You can find example input files under <code>./tests/</code>, and the complete documentation [https://www.msg.chem.iastate.edu/gamess/GAMESS_Manual/docs-input.txt here].

The default geometry specification is by only specifying symmetrically unique atoms, but you can also use cartesian and Z matrix format. This is controlled by a <code>$contrl</code> group keyword.

GAMESS also freezes core electrons in post-HF methods by default, and this may lead to slightly different results compared to other programmes. To turn it off in coupled-cluster for example, add the <code>ncore=0</code> keyword in the <code>$CCINP</code> group.

GAMESS doesn't use standard basis names, to find out the internal names, search <code>$BASIS</code> in the documentation above. Specifically, it doesn't have a lot of the def2 family of basis sets. You can paste the basis sets into the input file from [https://www.basissetexchange.org/ Basis Set Exchange], but this requires that you use their own geometry specification standards (symmetrically unique atoms).

Finally, an example input for a water molecule at 1.6 A bond length and 104.45 bond angle with a restricted HF reference at cc-pVDZ/CR-CCSD(T) level is given below:
<pre>
$contrl scftyp=rhf coord=zmt runtyp=energy units=angs cctyp=cr-cc ispher=1 $end
$system mwords=100 memddi=500 $end
$guess guess=huckel $end
$ccinp maxcc=100 ncore=0 $end
$basis gbasis=ccd $end
$data

cnv 2

O
H 1 1.6
H 1 1.6 2 104.45
$end
</pre>
All keywords are case insensitive. Note the single whitespace in front of each keyword group, which seems to be important..

= Issues with its coupled cluster modules =
GAMESS implements a great variety of coupled cluster methods, including the renormalised and the completely renormalised CCSD(T) and [T]. The reference paper for all of these methods (CCSD, CCSD(T)/[T], (C)RCCSD(T)/[T]) is found [https://doi.org/10.1016/S0010-4655(02)00598-2 here]. Unfortunately if you ever tried to code these equations up from scratch yourself, you'll find that they're wrong. After extensive debugging, we found that there are two typos in Table 1 defining the intermediates needed in the CCSD amplitude update equations:

[[File:Piecuch_ccsd_typo.png]]

File:Piecuch ccsd typo.png

2022-03-01T13:31:33Z

Zz376: