CIA 2010 covert communication websites / Reverse engineering Updated +Created
In this section we document the outcomes of more detailed inspection of both the communication mechanisms (JavaScript, JAR, swf) and HTML that might help to better fingerprint the websites.
CIA 2010 covert communication websites / The Reuters websites Updated +Created
But by looking at the URLs of the screenshots they provided from other websites we can easily uncover all others that had screenshots, except for the Johnny Carson one, which is just generically named. E.g. the image for the Chinese one is www.reuters.com/investigates/special-report/assets/usa-spies-iran/screencap-activegaminginfo.com.jpg?v=192516290922 which leads us to domain activegaminginfo.com.
Also none of those extra ones have any Google hits except for huge domain dumps such has Expired domain trackers, so maybe this counts as little bit of novel public research.
The full list of domains from screenshots is:
This brings up to 8 known domain names with Wayback Machine archives, plus the yet unidentified Johnny Carlson one, see also: Section "Searching for Carson", which is also almost certainly is on Wayback Machine somewhere given that they have a screenshot of it.
Coinbase transaction Updated +Created
The first transaction of each Bitcoin block is called the "coinbase transaction", and it is magic as it does not need to point to a previous output script and have a valid input script as it serves as a Block reward for miners.
Number of the beast Updated +Created
AppImage Updated +Created
CPT symmetry Updated +Created
Crow intelligence experiment Updated +Created
Video 1.
Causal understanding of water displacement by a crow by PLOS Media (2014)
Source.
Department of the University of Oxford Updated +Created
E. Coli Whole Cell Model by Covert Lab / Other run variants Updated +Created
Besides time series run variants, conditions can also be selected directly without a time series as in:
python runscripts/manual/runSim.py --variant condition 1 1
which select row indices from reconstruction/ecoli/flat/condition/condition_defs.tsv. The above 1 1 would mean the second line of that file which starts with:
"condition" "nutrients" "genotype perturbations" "doubling time (units.min)" "active TFs"
"basal" "minimal" {} 44.0 []
"no_oxygen" "minimal_minus_oxygen" {} 100.0 []
"with_aa" "minimal_plus_amino_acids" {} 25.0 ["CPLX-125", "MONOMER0-162", "CPLX0-7671", "CPLX0-228", "MONOMER0-155"]
so 1 means no_oxygen.
First mentions of bitcoin on YouTube Updated +Created
GoDaddy Updated +Created
Graduate course of the University of Oxford Updated +Created
Undergraduate course of the University of Oxford Updated +Created
Cool data embedded in the Bitcoin blockchain / Incoming links Updated +Created
By others:
Craig Silverstein Updated +Created
E. Coli Whole Cell Model by Covert Lab / Install and first run Updated +Created
At 7e4cc9e57de76752df0f4e32eca95fb653ea64e4 you basically need to use the Docker image on Ubuntu 21.04 due to pip breaking changes... (not their fault). Perhaps pyenv would solve things, but who has the patience for that?!?!
The Docker setup from README does just work. The image download is a bit tedius, as it requires you to create a GitHub API key as described in the README, but there must be reasons for that.
Once the image is downloaded, you really want to run is from the root of the source tree:
sudo docker run --name=wcm -it -v "$(pwd):/wcEcoli" docker.pkg.github.com/covertlab/wholecellecolirelease/wcm-full
This mounts the host source under /wcEcoli, so you can easily edit and view output images from your host. Once inside Docker we can compile, run the simulation, and analyze results with:
make clean compile &&
python runscripts/manual/runFitter.py &&
python runscripts/manual/runSim.py &&
python runscripts/manual/analysisVariant.py &&
python runscripts/manual/analysisCohort.py &&
python runscripts/manual/analysisMultigen.py &&
python runscripts/manual/analysisSingle.py
The meaning of each of the analysis commands is described at Section "Output overview".
As a Docker refresher, after you stop the container, e.g. by restarting your computer or running sudo docker stop wcm, you can get back into it with:
sudo docker start wcm
sudo docker run -it wcm bash
runscripts/manual/runFitter.py takes about 15 minutes, and it generates files such as reconstruction/ecoli/dataclasses/process/two_component_system.py (related) which is required to run the simulation, it is basically a part of the build.
runSim.py does the main simulation, progress output contains lines of type:
Time (s)  Dry mass     Dry mass      Protein          RNA    Small mol     Expected
              (fg)  fold change  fold change  fold change  fold change  fold change
========  ========  ===========  ===========  ===========  ===========  ===========
    0.00    403.09        1.000        1.000        1.000        1.000        1.000
    0.20    403.18        1.000        1.000        1.000        1.000        1.000
and then it ended on the Lenovo ThinkPad P51 (2017) at:
 2569.18    783.09        1.943        1.910        2.005        1.950        1.963

Simulation finished:
 - Length: 0:42:49
 - Runtime: 0:09:13
when the cell had almost doubled, and presumably divided in 42 minutes of simulated time, which could make sense compared to the 20 under optimal conditions.
ELF Hello World Tutorial / Standards Updated +Created
The LSB basically links to other standards with minor extensions, in particular:
A handy summary can be found at:
man elf

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