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Fabry Perot Interferometer by JFC UCL (2016)
Source. Description only, reasonable animations. Considers the case of two nearby beam splitters.Fabry-Perot Introduction by Williams College Physics (2020)
Source. Shows a working device. Confocal optical cavity, one of the mirrors scans back and forward moved by a piezoelectric motor, this is called a "scanning Fabry-Perot interferometer".
Does not produce an interference pattern, only an on/off blob, which is then fed into an oscilloscope for analysis. The oscilloscope shows both the mirror displacement (which is given by a voltage) and the light detector output.
The main FeathersJS hello world demo. Notable missing things...
- instant Heroku deployability: FeathersJS Heroku deployment
- no Front-end web framework which sucks, but there are basically official demos that worked e.g. feathers-chat-react
- FeathersJS signup email verification
As of 2021, last commit from 2017.
Running:failed on Ubuntu 20.10 Node.js v14.15.3 with:Likely similar bullshit from: stackoverflow.com/questions/50111688/node-sqlite-node-gyp-build-error-no-member-named-forceset-in-v8object because the Node.js version is too new.
git clone https://github.com/Codaisseur/feathersjs-react-redux-ssr
cd feathersjs-react-redux-ssr
npm install../src/create_string.cpp:17:37: error: no matching function for call to ‘v8::String::Utf8Value::Utf8Value(v8::Local<v8::Value>&)’
17 | v8::String::Utf8Value string(value);
| ^If I try
nvm install v10I Google error messages until reaching:and the next problem is: stackoverflow.com/questions/48513573/gulp-error-gulp-hastask-is-not-a-function
diff --git a/gulpfile.js b/gulpfile.js
index b931e06..24d2cc8 100644
--- a/gulpfile.js
+++ b/gulpfile.js
@@ -14,34 +14,34 @@ gulp.task('css', function() {
.pipe(gulp.dest('./dist'))
})
-gulp.task('css:watch', ['css'], function() {
+gulp.task('css:watch', gulp.series('css', function() {
gulp.watch('app/styles/**/*.sass', ['css'])
-})
+}))
gulp.task('moveAssets', function() {
return gulp.src('./app/assets/**/*')
.pipe(gulp.dest('./dist/assets'))
})
-gulp.task('build:revAssets', ['css', 'moveAssets'], function() {
+gulp.task('build:revAssets', gulp.series('css', 'moveAssets', function() {
var rev = new $.revAll()
return gulp.src('./dist/**/*')
.pipe(rev.revision())
.pipe(gulp.dest('./dist/public'))
.pipe(rev.manifestFile())
.pipe(gulp.dest('./dist'))
-})
+}))
gulp.task('build:cpServer', function() {
return gulp.src('./app/**/*.{js,ejs}')
.pipe(gulp.dest('./dist/server-build'))
})
-gulp.task('build:revServer', ['build:cpServer'], function() {
+gulp.task('build:revServer', gulp.series('build:cpServer', function() {
var manifest = gulp.src('./dist/rev-manifest.json')
return gulp.src('./dist/server-build/{components,containers}/**/*')
.pipe($.revReplace({ manifest: manifest }))
.pipe(gulp.dest('./dist/server-build'))
-})
+}))
gulp.task('build', function() {
runSequence('build:revAssets', 'build:revServer')
diff --git a/package.json b/package.json
index bcb29c3..86bd593 100644
--- a/package.json
+++ b/package.json
@@ -67,7 +67,7 @@
"redux-thunk": "^0.1.0",
"request": "^2.79.0",
"rewire": "^2.3.4",
- "run-sequence": "^1.2.2",
+ "run-sequence": "^2.2.1",
"serve-favicon": "^2.3.2",
"socket.io-client": "^1.7.2",
"superagent": "^1.4.0",
@@ -86,16 +86,16 @@
"concurrently": "^2.0.0",
"cross-env": "^1.0.7",
"enzyme": "^2.3.0",
- "gulp": "^3.9.0",
+ "gulp": "^4.0.2",
"gulp-autoprefixer": "^3.1.0",
"gulp-load-plugins": "^1.2.0",
"gulp-rev": "^6.0.1",
- "gulp-sass": "^2.1.1",
+ "gulp-sass": "4.1.0",
"gulp-sourcemaps": "^1.6.0",
"jsdom": "^7.0.1",
"mocha": "^2.4.5",
"nock": "^2.17.0",
- "node-sass": "^3.4.2",
+ "node-sass": "^5.0.0",
"nodemon": "^1.6.0",
"react-addons-test-utils": "^15.3.2",
"react-transform-catch-errors": "^1.0.0",FeathersJS entry for gothinkster/realworld.
MongoDB-based.
So once you install MongoDB, run with:
MONGODB_FEATHERS_REALWORLD=mongodb://localhost:27017/mydb npm startGot it working on Ubuntu 20.10 with both React and Vue.js front-ends at github.com/randyscotsmithey/feathers-realworld-example-app/commit/8bc3a09242285de624c75bb8345630df499a7d07 as mentioned at github.com/randyscotsmithey/feathers-realworld-example-app/issues/2 except for bad error reporting on UI.
Tests can be run with:but there were 10 failures and 55 passes: github.com/randyscotsmithey/feathers-realworld-example-app/issues/3
MONGODB_FEATHERS_REALWORLD=mongodb://localhost:27017/mydb npm run testhello_world_len points to the special st_shndx == SHN_ABS == 0xF1FF.0xF1FF is chosen so as to not conflict with other sections.st_value == 0xD == 13 which is the value we have stored there on the assembly: the length of the string Hello World!.This is small optimization that our assembler does for us and which has ELF support.
The first gene in the E. Coli K-12 MG1655 genome. Remember however that bacterial chromosome is circular, so being the first doesn't mean much, how the choice was made: Section "E. Coli genome starting point".
Part of E. Coli K-12 MG1655 operon thrLABC.
At only 65 bp, this gene is quite small and boring. For a more interesting gene, have a look at the next gene, e. Coli K-12 MG1655 gene thrA.
Does something to do with threonine.
This is the first in the sequence thrL, thrA, thrB, thrC. This type of naming convention is quite common on related adjacent proteins, all of which must be getting transcribed into a single RNA by the same promoter. As mentioned in the analysis of the KEGG entry for e. Coli K-12 MG1655 gene thrA, those A, B and C are actually directly functionally linked in a direct metabolic pathway.
We can see that thrL, A, B, and C are in the same transcription unit by browsing the list of promoter at: biocyc.org/group?id=:ALL-PROMOTERS&orgid=ECOLI. By finding the first one by position we reach; biocyc.org/ECOLI/NEW-IMAGE?object=TU0-42486.
NCBI entry: www.ncbi.nlm.nih.gov/gene/945803.
This protein is an enzyme. The UniProt entry clearly shows the chemical reactions that it catalyses. In this case, there are actually two! It can either transforming the metabolite:Also interestingly, we see that both of those reaction require some extra energy to catalyse, one needing adenosine triphosphate and the other nADP+.
TODO: any mention of how much faster it makes the reaction, numerically?
Since this is an enzyme, it would also be interesting to have a quick search for it in the KEGG entry starting from the organism: www.genome.jp/pathway/eco01100+M00022 We type in the search bar "thrA", it gives a long list, but the last entry is our "thrA". Selecting it highlights two pathways in the large graph, so we understand that it catalyzes two different reactions, as suggested by the protein name itself (fused blah blah). We can now hover over:Note that common cofactor are omitted, since we've learnt from the UniProt entry that this reaction uses ATP.
- the edge: it shows all the enzymes that catalyze the given reaction. Both edges actually have multiple enzymes, e.g. the L-Homoserine path is also catalyzed by another enzyme called metL.
- the node: they are the metabolites, e.g. one of the paths contains "L-homoserine" on one node and "L-aspartate 4-semialdehyde"
If we can now click on the L-Homoserine edge, it takes us to: www.genome.jp/entry/eco:b0002+eco:b3940. Under "Pathway" we see an interesting looking pathway "Glycine, serine and threonine metabolism": www.genome.jp/pathway/eco00260+b0002 which contains a small manually selected and extremely clearly named subset of the larger graph!
But looking at the bottom of this subgraph (the UI is not great, can't Ctrl+F and enzyme names not shown, but the selected enzyme is slightly highlighted in red because it is in the URL www.genome.jp/pathway/eco00260+b0002 vs www.genome.jp/pathway/eco00260) we clearly see that thrA, thrB and thrC for a sequence that directly transforms "L-aspartate 4-semialdehyde" into "Homoserine" to "O-Phospho-L-homoserine" and finally tothreonine. This makes it crystal clear that they are not just located adjacently in the genome by chance: they are actually functionally related, and likely controlled by the same transcription factor: when you want one of them, you basically always want the three, because you must be are lacking threonine. TODO find transcription factor!
The UniProt entry also shows an interactive browser of the tertiary structure of the protein. We note that there are currently two sources available: X-ray crystallography and AlphaFold. To be honest, the AlphaFold one looks quite off!!!
By inspecting the FASTA for the entire genome, or by using the NCBI open reading frame tool, we see that this gene lies entirely in its own open reading frame, so it is quite boring
From the FASTA we see that the very first three Codons at position 337 arewhere
ATG CGA GTGATG is the start codon, and CGA GTG should be the first two that actually go into the protein:ecocyc.org/gene?orgid=ECOLI&id=ASPKINIHOMOSERDEHYDROGI-MONOMER mentions that the enzime is most active as protein complex with four copies of the same protein:TODO image?
Aspartate kinase I / homoserine dehydrogenase I comprises a dimer of ThrA dimers. Although the dimeric form is catalytically active, the binding equilibrium dramatically favors the tetrameric form. The aspartate kinase and homoserine dehydrogenase activities of each ThrA monomer are catalyzed by independent domains connected by a linker region.
Immediately follows e. Coli K-12 MG1655 gene thrA,
Part of E. Coli K-12 MG1655 operon thrLABC.
Pinned article: Introduction to the OurBigBook Project
Welcome to the OurBigBook Project! Our goal is to create the perfect publishing platform for STEM subjects, and get university-level students to write the best free STEM tutorials ever.
Everyone is welcome to create an account and play with the site: ourbigbook.com/go/register. We belive that students themselves can write amazing tutorials, but teachers are welcome too. You can write about anything you want, it doesn't have to be STEM or even educational. Silly test content is very welcome and you won't be penalized in any way. Just keep it legal!
Intro to OurBigBook
. Source. We have two killer features:
- topics: topics group articles by different users with the same title, e.g. here is the topic for the "Fundamental Theorem of Calculus" ourbigbook.com/go/topic/fundamental-theorem-of-calculusArticles of different users are sorted by upvote within each article page. This feature is a bit like:
- a Wikipedia where each user can have their own version of each article
- a Q&A website like Stack Overflow, where multiple people can give their views on a given topic, and the best ones are sorted by upvote. Except you don't need to wait for someone to ask first, and any topic goes, no matter how narrow or broad
This feature makes it possible for readers to find better explanations of any topic created by other writers. And it allows writers to create an explanation in a place that readers might actually find it.
Figure 1. Screenshot of the "Derivative" topic page. View it live at: ourbigbook.com/go/topic/derivativeVideo 2. OurBigBook Web topics demo. Source. - local editing: you can store all your personal knowledge base content locally in a plaintext markup format that can be edited locally and published either:This way you can be sure that even if OurBigBook.com were to go down one day (which we have no plans to do as it is quite cheap to host!), your content will still be perfectly readable as a static site.
- to OurBigBook.com to get awesome multi-user features like topics and likes
- as HTML files to a static website, which you can host yourself for free on many external providers like GitHub Pages, and remain in full control
Figure 3. Visual Studio Code extension installation.
Figure 4. Visual Studio Code extension tree navigation.
Figure 5. Web editor. You can also edit articles on the Web editor without installing anything locally.Video 3. Edit locally and publish demo. Source. This shows editing OurBigBook Markup and publishing it using the Visual Studio Code extension.Video 4. OurBigBook Visual Studio Code extension editing and navigation demo. Source. 
- Infinitely deep tables of contents:
All our software is open source and hosted at: github.com/ourbigbook/ourbigbook
Further documentation can be found at: docs.ourbigbook.com
Feel free to reach our to us for any help or suggestions: docs.ourbigbook.com/#contact