Automated commit

2 files changed, 1199 insertions, 0 deletions

diff --git a/2023/captions/emacsconf-2023-collab--collaborative-data-processing-and-documenting-using-orgbabel--jonathan-hartman-lukas-c-bossert--main--chapters.vtt b/2023/captions/emacsconf-2023-collab--collaborative-data-processing-and-documenting-using-orgbabel--jonathan-hartman-lukas-c-bossert--main--chapters.vtt
new file mode 100644
index 00000000..dca4982e
--- /dev/null
+++ b/2023/captions/emacsconf-2023-collab--collaborative-data-processing-and-documenting-using-orgbabel--jonathan-hartman-lukas-c-bossert--main--chapters.vtt
@@ -0,0 +1,23 @@
+WEBVTT
+
+
+00:00:00.000 --> 00:01:16.079
+Introduction
+
+00:01:16.080 --> 00:02:18.959
+Org Mode
+
+00:02:18.960 --> 00:06:27.839
+Working together
+
+00:06:27.840 --> 00:08:04.039
+Data cleaning
+
+00:08:04.040 --> 00:12:36.039
+Processing
+
+00:12:36.040 --> 00:14:01.759
+Visualization
+
+00:14:01.760 --> 00:19:07.280
+Preserve
diff --git a/2023/captions/emacsconf-2023-collab--collaborative-data-processing-and-documenting-using-orgbabel--jonathan-hartman-lukas-c-bossert--main.vtt b/2023/captions/emacsconf-2023-collab--collaborative-data-processing-and-documenting-using-orgbabel--jonathan-hartman-lukas-c-bossert--main.vtt
new file mode 100644
index 00000000..1dcc0b22
--- /dev/null
+++ b/2023/captions/emacsconf-2023-collab--collaborative-data-processing-and-documenting-using-orgbabel--jonathan-hartman-lukas-c-bossert--main.vtt
@@ -0,0 +1,1176 @@
+WEBVTT captioned by amine, checked by sachac
+
+NOTE Introduction
+
+00:00.000 --> 00:00:01.874
+[Lukas]: Welcome to our presentation,
+
+00:00:01.875 --> 00:00:03.599
+Collaborative Data Processing
+
+00:03.600 --> 00:06.039
+and Documenting using org-babel.
+
+00:06.040 --> 00:07.759
+My name is Lukas Bossert, and I'm
+
+00:07.760 --> 00:00:09.740
+from the RWTH Aachen University
+
+00:00:09.741 --> 00:00:12.519
+in the city of Aachen, Germany.
+
+00:12.520 --> 00:14.839
+[Jonathan]: And my name is Jonathan Hartmann.
+
+00:14.840 --> 00:18.719
+I'm also from the IT Center here at RWTH Aachen.
+
+00:18.720 --> 00:19.239
+[Lukas]: Great.
+
+00:19.240 --> 00:21.679
+And we will show you today how you
+
+00:21.680 --> 00:25.399
+can use Org Mode for data processing.
+
+00:25.400 --> 00:27.999
+So you see a little workflow what we are going to do.
+
+00:28.000 --> 00:31.199
+First, we will give you a slight introduction to Org Mode.
+
+00:31.200 --> 00:34.639
+Then we will dive into the part of data preparing.
+
+00:34.640 --> 00:38.679
+First, you're going to query the data using the language SPARQL.
+
+00:38.680 --> 00:41.759
+Then we're going to clean it using a different language.
+
+00:41.760 --> 00:44.279
+And in the main part of our presentation,
+
+00:44.280 --> 00:48.119
+we're going to do the data processing, first aggregating
+
+00:48.120 --> 00:52.519
+using Python, later on counting items using Org,
+
+00:52.520 --> 00:56.360
+and even visualizing it using R. At the end,
+
+00:56.400 --> 00:58.959
+we're going to show you how to preserve
+
+00:58.960 --> 01:01.759
+the data and the document and its documentation,
+
+01:01.760 --> 01:06.599
+first doing in plain exporting, then adding some metadata,
+
+01:06.600 --> 01:09.759
+and showing you two different ways, first a manual export,
+
+01:09.760 --> 01:13.359
+and also then a batch-processed export.
+
+01:13.360 --> 01:14.239
+All right.
+
+01:14.240 --> 01:16.079
+Let's dive in to that.
+
+NOTE Org Mode
+
+01:16.080 --> 01:19.919
+Jonathan, can you give us an introduction about Org Mode?
+
+01:19.920 --> 01:20.439
+[Jonathan]: Of course.
+
+01:20.440 --> 01:23.079
+So in case anyone isn't familiar with it,
+
+01:23.080 --> 01:25.879
+Org Mode, in the words of Carsten Dominik,
+
+01:25.880 --> 01:28.559
+is back to the future for plain text.
+
+01:28.560 --> 01:31.439
+So this is just a module available for Emacs,
+
+01:31.440 --> 01:32.519
+plain-text base.
+
+01:32.520 --> 01:34.919
+It's been around since 2003, which
+
+01:34.920 --> 01:36.799
+makes it about 20 years old.
+
+01:36.800 --> 01:40.159
+And it's extensible and fully customizable.
+
+01:40.160 --> 01:43.999
+And especially, it's very convenient, very good
+
+01:44.000 --> 01:46.719
+for scientific text production and organization.
+
+01:46.720 --> 01:49.439
+So for example, you can do project management, agenda,
+
+01:49.440 --> 01:52.559
+diary, journaling, personal knowledge management,
+
+01:52.560 --> 01:53.359
+presentation.
+
+01:53.360 --> 01:55.520
+Even this is written in Org Mode.
+
+01:55.560 --> 01:57.439
+It's an Org Mode presentation.
+
+01:57.440 --> 01:59.199
+You can do single source publishing,
+
+01:59.200 --> 02:01.679
+which we will do later on, and also
+
+02:01.680 --> 02:06.479
+literate programming, which is the core of our talk.
+
+02:06.480 --> 02:06.999
+OK.
+
+02:07.000 --> 02:10.799
+[Lukas]: So let me stop this presentation here.
+
+02:10.800 --> 02:14.719
+So what you see here is the plain text underneath it.
+
+02:14.720 --> 02:18.959
+So this is Org Mode.
+
+NOTE Working together
+
+02:18.960 --> 02:21.919
+And Jonathan, since we kind of already
+
+02:21.920 --> 02:25.320
+did the introduction together, should we
+
+02:26.120 --> 00:02:28.760
+also do the working part together?
+
+00:02:28.761 --> 00:02:29.700
+[Jonathan]: Of course.
+
+00:02:29.701 --> 00:02:33.119
+So you see on the screen there on the right,
+
+00:02:33.120 --> 00:02:35.060
+that's my screen in Emacs.
+
+00:02:35.061 --> 00:02:39.520
+And Lukas, why don't you host a session using CRDT,
+
+00:02:39.521 --> 00:02:41.200
+and I'll connect to your buffer.
+
+00:02:41.201 --> 00:02:42.560
+[Lukas]: OK. Great.
+
+00:02:42.561 --> 00:02:43.280
+I do that.
+
+00:02:43.281 --> 00:02:46.180
+So what I do, I'm using Doom Emacs.
+
+00:02:46.181 --> 00:02:49.307
+And I can use the `SPC` and then the `l`
+
+00:02:49.308 --> 00:02:52.140
+for the live share/collab part.
+
+00:02:52.141 --> 02:57.999
+I can use the `s` for share current buffer.
+
+02:58.000 --> 00:03:01.559
+So when I do this, I'm getting asked for some settings.
+
+00:03:01.560 --> 00:03:04.439
+I'm going with the default settings here.
+
+00:03:04.440 --> 00:03:08.340
+So default port, no password, and my display name.
+
+00:03:08.341 --> 00:03:11.940
+And now Emacs is connecting.
+
+00:03:11.941 --> 00:03:15.179
+And once it's connected, which just takes a couple of seconds,
+
+00:03:15.180 --> 00:03:17.239
+I can get the URL.
+
+00:03:17.240 --> 03:20.800
+So I'm going back to this menu and using `y`
+
+03:21.160 --> 03:23.999
+for copying the URL of the current session.
+
+03:24.000 --> 03:27.799
+And this is the URL I'm going to send over to you, Jonathan,
+
+03:27.800 --> 03:29.079
+to pick that up.
+
+03:29.080 --> 03:29.599
+[Jonathan]: Right.
+
+03:29.600 --> 03:30.079
+OK.
+
+03:30.080 --> 00:03:36.999
+And now on my screen, I'm going to do a `SPC l c` for connect.
+
+00:03:37.000 --> 00:03:38.740
+And I'm going to paste the URL
+
+00:03:38.741 --> 00:03:40.040
+that Lukas just sent me in here.
+
+00:03:40.980 --> 03:43.719
+Default port, no password.
+
+03:43.720 --> 00:03:45.440
+And we're connecting now.
+
+00:03:45.700 --> 03:48.600
+So this takes a second just to get us synced up.
+
+03:51.600 --> 00:03:54.160
+So we can work on the same document at the same time.
+
+00:03:54.161 --> 03:56.639
+We can follow each other's cursors around.
+
+03:56.640 --> 03:58.839
+We can have multiple buffers open and work on them
+
+03:58.840 --> 04:00.999
+at the same time.
+
+04:01.000 --> 04:04.719
+And so here you see that we are both in the same document.
+
+04:04.720 --> 04:06.280
+You can see my cursor popping around.
+
+04:09.040 --> 04:13.279
+And you can see we're both editing the same item.
+
+04:13.280 --> 04:14.039
+Great.
+
+04:14.040 --> 04:18.039
+[Lukas]: So we also see who else is currently in our buffer
+
+04:18.040 --> 04:20.199
+with the user overview.
+
+04:20.200 --> 04:23.559
+So let me just delete that window.
+
+04:23.560 --> 04:26.079
+And that's going to work in our main one.
+
+04:26.080 --> 04:29.599
+So we said first part is about data retrieval.
+
+04:29.600 --> 04:32.720
+So we should give it a headline.
+
+04:37.080 --> 04:39.239
+We said prepare stage.
+
+04:39.240 --> 04:42.319
+So what are we going to do first, Jonathan?
+
+04:42.320 --> 00:04:43.940
+[Jonathan]: So what we're going to do,
+
+00:04:43.941 --> 00:04:45.399
+what this whole document is based upon,
+
+04:45.400 --> 04:50.119
+is we're going to pull data from Wikidata using a SPARQL query.
+
+04:50.120 --> 04:53.519
+The data we're going to pull is related to the NFDIs,
+
+04:53.520 --> 04:55.639
+which here in Germany is the National Forschungsdaten
+
+04:55.640 --> 05:00.679
+Infrastructure, which is a sort of collection of universities
+
+05:00.680 --> 05:03.399
+that work together on various research projects.
+
+05:03.400 --> 05:05.599
+And this is emblematic of the kind of data
+
+05:05.600 --> 05:09.239
+that we would be interested in working with here.
+
+05:09.240 --> 05:13.359
+So I'm going to paste a--forgive the pre-written code--
+
+05:13.360 --> 05:19.840
+I'm going to paste some text in here.
+
+05:20.040 --> 00:05:21.407
+[Lukas]: And while you are talking, I just
+
+00:05:21.408 --> 00:05:23.359
+keep on documenting what we do
+
+00:05:23.360 --> 00:05:25.880
+so we can split the work.
+
+05:27.360 --> 05:29.679
+[Jonathan]: In here, after a minor technical upset,
+
+05:29.680 --> 05:32.559
+is the raw dataset cell.
+
+05:32.560 --> 00:05:34.740
+And it's going to use SPARQL,
+
+00:05:34.741 --> 00:05:37.174
+which is how we have the syntax highlighting
+
+00:05:37.175 --> 00:05:37.940
+in our code here.
+
+00:05:37.941 --> 05:40.639
+It's going to go to the URL endpoint
+
+05:40.640 --> 05:43.639
+query.wikidata.org/sparql ,
+
+05:43.640 --> 05:46.799
+and it's going to return the data as a text CSV,
+
+05:46.800 --> 05:49.279
+and it's going to cache that data
+
+05:49.280 --> 05:51.439
+so that we don't constantly hammer the API every time
+
+05:51.440 --> 05:54.239
+we run this notebook.
+
+05:54.240 --> 00:05:57.360
+So I'm going to run that there.
+
+00:05:57.361 --> 05:58.799
+You can see down at the bottom of my screen,
+
+05:58.800 --> 06:00.840
+we're contacting the host query.wikidata.org .
+
+06:05.720 --> 06:07.319
+[Lukas]: And there's the result.
+
+06:07.320 --> 06:11.799
+[Jonathan]: Yeah, except I think that for our purposes here,
+
+06:11.800 --> 06:15.279
+we're just going to limit this to 50 results.
+
+06:15.280 --> 06:16.279
+[Lukas]: Oh, yeah.
+
+06:16.280 --> 06:18.679
+[Jonathan]: Just so it's a little easier for us to manage.
+
+06:18.680 --> 06:20.719
+I'm going to run that again.
+
+06:20.720 --> 06:21.519
+There we go.
+
+06:21.520 --> 00:06:22.319
+That looks a little better.
+
+00:06:22.320 --> 00:06:23.159
+[Lukas]: I think that's fine.
+
+00:06:23.160 --> 00:06:25.359
+50 items is fine.
+
+00:06:25.360 --> 06:27.839
+So what do we see here, Jonathan?
+
+NOTE Data cleaning
+
+06:27.840 --> 06:28.319
+[Jonathan]: Right.
+
+06:28.320 --> 06:31.239
+So the first thing we see when we look at this
+
+06:31.240 --> 00:06:33.307
+is a couple of Q codes at the top,
+
+00:06:33.308 --> 00:06:36.079
+which are an artifact of Wikidata.
+
+06:36.080 --> 06:39.519
+So these are pages which don't have
+
+06:39.520 --> 06:42.519
+the label for whichever institution they happen to be.
+
+06:42.520 --> 06:45.919
+For our purposes here, we're just going to exclude them.
+
+06:45.920 --> 06:48.199
+We could just go on Wikidata and edit them ourselves.
+
+06:48.200 --> 06:50.399
+But for now, it's a little more interesting
+
+06:50.400 --> 06:52.519
+if we go and remove them.
+
+06:52.520 --> 06:55.159
+So I'm going to create a new cell.
+
+06:55.160 --> 06:58.279
+Lukas, if you don't mind starting one for data cleaning.
+
+06:58.280 --> 06:58.879
+[Lukas]: Oh, yeah.
+
+06:58.880 --> 06:59.479
+Good point.
+
+06:59.480 --> 07:02.039
+Yeah, data cleaning.
+
+07:02.040 --> 07:03.439
+OK.
+
+07:03.440 --> 00:07:05.499
+How do you want to do that, Jonathan?
+
+00:07:05.500 --> 07:09.759
+[Jonathan]: I'm going to use a shell command.
+
+07:09.760 --> 07:11.119
+So let's see.
+
+07:11.120 --> 07:12.999
+There we go.
+
+07:13.000 --> 07:15.159
+And so you can see, here is another cell,
+
+07:15.160 --> 07:20.039
+that the cell is now using a shell,
+
+07:20.040 --> 00:07:23.799
+and that we have this thing `:var input=raw-dataset`,
+
+00:07:23.800 --> 00:07:25.840
+which is the name of the cell above
+
+00:07:25.841 --> 00:07:28.439
+where we got our data from Wikidata.
+
+07:28.440 --> 07:31.679
+This is going to run just a simple shell command.
+
+07:31.680 --> 07:33.959
+It's going to take the input and then run `sed` on it
+
+07:33.960 --> 00:07:37.039
+and exclude any records which have a Q
+
+00:07:37.040 --> 00:07:41.279
+followed by one or more digits afterwards.
+
+07:41.280 --> 07:43.960
+That should remove those from our data set.
+
+07:44.000 --> 07:45.400
+So I'm going to run that.
+
+07:48.640 --> 07:51.039
+That seems to have done the trick.
+
+07:51.040 --> 07:51.879
+[Lukas]: Great, yeah.
+
+07:51.880 --> 07:52.919
+That's really good.
+
+07:52.920 --> 07:55.399
+We got rid of all the Q items.
+
+07:55.400 --> 07:55.919
+Very good.
+
+07:55.920 --> 07:59.959
+So we just have two-column table: institutions
+
+07:59.960 --> 08:02.759
+and consortia.
+
+08:02.760 --> 08:04.039
+Very nice.
+
+NOTE Processing
+
+08:04.040 --> 08:08.719
+So let's come to our main part, doing some processing.
+
+08:08.720 --> 08:13.560
+Let me give you a headline here, process the data.
+
+08:13.640 --> 08:15.519
+What do you want to do first?
+
+08:15.520 --> 08:17.599
+[Jonathan]: This is not a very complicated data set,
+
+08:17.600 --> 08:19.439
+but let's just do some simple counts first.
+
+08:19.440 --> 08:22.199
+I'm going to start with Python,
+
+08:22.200 --> 08:25.239
+and we're just going to do some aggregation with Python.
+
+08:25.240 --> 08:30.039
+Again, I've got some pre-written code here.
+
+08:30.040 --> 08:34.999
+You can see that we've started a cell using Python.
+
+08:35.000 --> 08:37.879
+The variable `clean_df` now is equal to `clean-dataset`.
+
+08:37.880 --> 00:08:39.707
+So we're going to take that data
+
+00:08:39.708 --> 00:08:41.039
+that we retrieved from the SPARQL query,
+
+08:41.040 --> 08:42.680
+we're going to run it through the cleaning cell,
+
+08:42.720 --> 08:45.239
+and then we're going to import it into this cell.
+
+08:45.240 --> 08:47.839
+This is just going to do some simple Python aggregation.
+
+08:47.840 --> 00:08:49.007
+We're going to import `pandas`,
+
+00:08:49.008 --> 00:08:51.307
+which is the Python data science library,
+
+00:08:51.308 --> 00:08:54.839
+create a data frame out of our input,
+
+08:54.840 --> 08:57.479
+and then aggregate it, grouping on `wLabel`,
+
+08:57.480 --> 08:59.959
+and getting a count from that and returning it.
+
+08:59.960 --> 09:01.640
+So if we execute that cell...
+
+09:05.040 --> 09:08.879
+[Lukas]: Nice, we get institutions and a count.
+
+09:08.880 --> 09:14.119
+But what about not ordering it by the alphabet,
+
+09:14.120 --> 09:17.079
+but more like ordering by counts?
+
+09:17.080 --> 09:18.439
+[Jonathan]: Sure.
+
+09:18.440 --> 09:22.839
+So let's do this... `sort_values()`, I think, as the Python.
+
+09:22.840 --> 09:24.919
+How does that look?
+
+09:24.920 --> 00:09:27.640
+[Lukas]: Better, but I would like to
+
+00:09:27.641 --> 00:09:29.239
+have the highest number first
+
+09:29.240 --> 09:32.239
+and then ascending.
+
+09:32.240 --> 09:34.719
+Well, not ascending, descending.
+
+09:34.720 --> 09:37.600
+[Jonathan]: Right, so we can do `ascending=False`.
+
+09:39.880 --> 09:42.559
+[Lukas]: This is perfect, I'd say.
+
+09:42.560 --> 09:43.079
+[Jonathan]: Great.
+
+09:43.080 --> 09:44.079
+[Lukas]: Very good.
+
+09:44.080 --> 00:09:46.799
+OK, that's nice.
+
+00:09:46.800 --> 09:47.999
+We get a good overview here.
+
+09:48.000 --> 09:50.079
+But can we also do something else,
+
+09:50.080 --> 09:56.079
+like counting how many institutions are
+
+09:56.080 --> 09:57.799
+involved in one consortium?
+
+09:57.800 --> 10:00.879
+And also using this later on in the text?
+
+10:00.880 --> 00:10:00.880
+[Jonathan]: Sure, so I'm going to put a new...
+
+00:10:00.881 --> 00:10:05.040
+If you give me another heading down here
+
+00:10:05.041 --> 00:10:08.320
+for institutions per consortium...
+
+10:12.080 --> 10:16.799
+And here we're going to use awk code just to spice things up
+
+10:16.800 --> 10:18.959
+and add yet another language in here.
+
+10:18.960 --> 10:22.439
+So you can see this is awk.
+
+10:22.440 --> 10:26.279
+We're using standard in instead of defining a variable.
+
+10:26.280 --> 10:28.359
+But the really interesting thing about this cell
+
+10:28.360 --> 00:10:33.399
+is that we have this `:var consortium="NFDI4Memory"`.
+
+10:33.400 --> 00:10:35.640
+And what this code is doing is
+
+00:10:35.641 --> 00:10:38.040
+it's counting any time it sees
+
+00:10:38.041 --> 00:10:40.279
+that particular consortium name
+
+10:40.280 --> 10:41.759
+and keeping track of that.
+
+10:41.760 --> 00:10:43.907
+So if we execute this,
+
+00:10:43.908 --> 00:10:45.919
+Lukas, why don't you execute this one?
+
+10:45.920 --> 10:49.399
+[Lukas]: OK, I'm going to enter it.
+
+10:49.400 --> 10:52.439
+And I get a result, NFDI4Memory,
+
+10:52.440 --> 10:58.239
+because this is our default value for this variable.
+
+10:58.240 --> 10:59.439
+And we get the count.
+
+10:59.440 --> 00:11:01.640
+So it's five institutions are involved
+
+00:11:01.641 --> 00:11:04.639
+in the NFDI4memory consortium.
+
+11:04.640 --> 11:07.839
+Great, but the very nice thing, what I think,
+
+11:07.840 --> 11:12.519
+is here that we can use this code snippet within our text.
+
+11:12.520 --> 11:14.279
+So, blended in seamlessly.
+
+11:14.280 --> 11:16.199
+Let me give you an example.
+
+11:16.200 --> 11:18.919
+I'm writing out the text.
+
+11:18.920 --> 11:27.599
+Now we know how many institutions are in...
+
+11:27.600 --> 11:29.239
+Give me an example.
+
+11:29.240 --> 11:31.480
+I would like to know how many institutions are
+
+11:31.560 --> 11:35.079
+involved in NFDI4Objects, which is a consortium.
+
+11:35.080 --> 11:39.239
+So I'm writing `call_` and using
+
+11:39.240 --> 00:11:42.607
+the name of this snippet here, of this cell,
+
+00:11:42.608 --> 00:11:46.607
+which is `inst-count(`,
+
+00:11:46.608 --> 00:11:51.719
+and writing my value, `NFDI4Objects`.
+
+11:51.720 --> 11:57.999
+As soon as I evaluate this using `C-c C-c`,
+
+11:58.000 --> 12:00.279
+I get the result back here.
+
+12:00.280 --> 12:05.159
+I can do this even for more.
+
+12:05.160 --> 12:14.039
+Or in writing, `call_inst-count`, go with `NFDI4Earth`,
+
+12:14.040 --> 12:16.799
+which is another consortium.
+
+12:16.800 --> 12:20.559
+`C-c C-c`, it's three institutions.
+
+12:20.560 --> 12:23.439
+This can be used throughout your text,
+
+12:23.440 --> 12:26.639
+and as soon as the data set changes from in the beginning,
+
+12:26.640 --> 12:30.399
+maybe different results requiring Wikidata,
+
+12:30.400 --> 12:35.079
+this also will be updated once it's exported.
+
+12:35.080 --> 12:36.039
+Very nice, Jonathan.
+
+NOTE Visualization
+
+12:36.040 --> 00:12:38.974
+But I think we did a lot of analysis
+
+00:12:38.975 --> 00:12:41.079
+on text and counting things.
+
+12:41.080 --> 12:43.679
+Can we also do something more visual?
+
+12:43.680 --> 12:45.199
+Show me something.
+
+12:45.200 --> 12:45.759
+[Jonathan]: Sure.
+
+12:45.760 --> 12:48.639
+So what we can do with this, because we just
+
+12:48.640 --> 12:51.399
+have two columns here that are sort of related,
+
+12:51.400 --> 12:53.759
+we can build a little network plot out of it.
+
+12:53.760 --> 12:56.999
+So let's make a network visualization.
+
+12:57.000 --> 12:59.599
+We're going to use the `igraph` library from R
+
+12:59.600 --> 13:02.559
+and just plot the edges that we see here.
+
+13:02.560 --> 13:04.239
+There we go.
+
+13:04.240 --> 13:11.879
+There's my little heading and space.
+
+13:11.880 --> 13:13.479
+Here is our code.
+
+13:13.480 --> 13:16.039
+Again, just to be fancy and keep using
+
+13:16.040 --> 13:19.719
+different languages in here, we set a variable called
+
+13:19.720 --> 13:21.560
+`NFDI_edges` equal to `clean-dataset`.
+
+13:21.600 --> 13:23.399
+So this, again, is sort of cascading
+
+13:23.400 --> 00:13:25.740
+through the original data
+
+00:13:25.741 --> 00:13:28.807
+that we pulled from the Wikidata endpoint,
+
+00:13:28.808 --> 00:13:30.959
+cleaning that data, and now it's being inserted
+
+13:30.960 --> 13:32.959
+into this cell as well.
+
+13:32.960 --> 13:34.239
+But you see the difference here.
+
+13:34.240 --> 13:36.839
+Instead of exporting a table, what we're saying
+
+13:36.840 --> 13:39.239
+is that there will be a graphics file,
+
+13:39.240 --> 13:44.639
+and it will be called network-plot.png.
+
+13:44.640 --> 13:45.119
+All right.
+
+13:45.120 --> 13:47.959
+And so Lukas, why don't you execute this one?
+
+13:47.960 --> 13:48.759
+[Lukas]: There you go.
+
+13:48.760 --> 13:52.919
+I can click `C-c C-c`
+
+13:52.920 --> 13:59.159
+and I get a nice plot of the network below our cell.
+
+13:59.160 --> 14:01.759
+So this is very nice indeed.
+
+NOTE Preserve
+
+14:01.760 --> 14:05.199
+So I think it's about time to wrap it up and to export
+
+14:05.200 --> 14:07.959
+and to preserve the data and the documentation
+
+14:07.960 --> 14:13.079
+that we have in our very last step, calling preserve.
+
+14:13.080 --> 14:16.239
+So I would like to do it in two steps.
+
+14:16.240 --> 14:18.600
+First, maybe manually exporting it,
+
+14:18.800 --> 14:22.239
+but then also doing it in a batch process.
+
+14:22.240 --> 14:27.119
+Giving you some insights how to do that manual export.
+
+14:27.120 --> 14:30.559
+For example, you can do a LaTeX export.
+
+14:30.560 --> 14:34.279
+Let me write down the key combination to do that here.
+
+14:34.280 --> 14:44.560
+So you press `SPC m e l o`.
+
+14:44.600 --> 14:49.159
+Let me show you how this is done.
+
+14:49.160 --> 14:51.439
+So I'm pressing `SPC`.
+
+14:51.440 --> 14:55.679
+I'm pressing `m`, which is my local leader.
+
+14:55.680 --> 15:01.279
+I'm pressing `e`, which is now the `org-export-dispatch`.
+
+15:01.280 --> 15:03.519
+And now I have different options I can choose from.
+
+15:03.520 --> 15:07.119
+I want to do a LaTeX export because I want to get in PDF.
+
+15:07.120 --> 00:15:08.674
+So I'm pressing `l`.
+
+00:15:08.675 --> 00:15:11.479
+Now I've got different options available.
+
+15:11.480 --> 15:17.399
+So I'm pressing `o` for a PDF file and open that.
+
+15:17.400 --> 15:21.119
+Let's see now the code.
+
+15:21.120 --> 15:25.639
+Now this is exporting document.
+
+15:25.640 --> 00:15:29.674
+And what we have here is PDF,
+
+00:15:29.675 --> 00:15:31.974
+which contains our workflow in the beginning,
+
+00:15:31.975 --> 00:15:35.707
+our bullet points we have here,
+
+00:15:35.708 --> 00:15:37.919
+and also the code snippet
+
+15:37.920 --> 15:41.120
+that we use for querying the data.
+
+15:41.280 --> 15:43.599
+And we have the result below that.
+
+15:43.600 --> 15:46.999
+So this is our table with all the data sets.
+
+15:47.000 --> 15:51.879
+But as you can see, this is running out of the page.
+
+15:51.880 --> 15:55.679
+So this is not very nice using the default settings.
+
+15:55.680 --> 16:00.239
+But everything is in this PDF.
+
+16:00.240 --> 16:02.759
+I guess we can now show you a way
+
+16:02.760 --> 16:06.519
+how to improve this result.
+
+16:06.520 --> 16:07.039
+[Jonathan]: Right.
+
+16:07.040 --> 16:09.399
+So we have, of course, a version of this
+
+16:09.400 --> 00:16:10.774
+that we prepared ahead of time,
+
+00:16:10.775 --> 00:16:14.279
+which is more or less identical to the one we just made,
+
+16:14.280 --> 16:17.839
+but it has a little more text, a little more explanation,
+
+16:17.840 --> 16:20.559
+a little more documentation along with the code.
+
+16:20.560 --> 16:23.879
+You can see we have some metadata up at the top,
+
+16:23.880 --> 16:26.879
+the title, the authors, a bibliography,
+
+16:26.880 --> 16:31.679
+and most importantly, the `custom-export.setup` file,
+
+16:31.680 --> 16:36.879
+which lists specifically the sort of LaTeX commands
+
+16:36.880 --> 16:43.599
+that we're using and the HTML styles that we're going to use.
+
+16:43.600 --> 16:45.919
+And then down at the bottom of this file,
+
+16:45.920 --> 16:49.119
+we have our automatic batch process.
+
+16:49.120 --> 16:51.719
+Here is one more language we're including in here.
+
+16:51.720 --> 16:53.439
+So this is Lisp.
+
+16:53.440 --> 16:57.359
+And you can see here we are exporting to HTML, ASCII,
+
+16:57.360 --> 16:58.079
+and PDF.
+
+16:58.080 --> 17:01.359
+The nice thing about this is that this is a document.
+
+17:01.360 --> 00:17:03.307
+It's a sort of document that we have a couple of
+
+00:17:03.308 --> 00:17:08.639
+that we can have running automatically and building.
+
+17:08.640 --> 17:12.919
+It will export a HTML, an ASCII file, and a PDF file
+
+17:12.920 --> 00:17:14.674
+every time it's run based off of
+
+00:17:14.675 --> 00:17:17.319
+the most recent data available on Wikidata.
+
+17:17.320 --> 17:19.719
+So it's self-documenting.
+
+17:19.720 --> 00:17:22.440
+We have, of course, our data retrieval steps,
+
+00:17:22.441 --> 00:17:25.159
+our data cleaning steps, our data preparation steps,
+
+17:25.160 --> 17:28.359
+and our preservation steps all listed at the same time.
+
+17:28.360 --> 17:30.239
+And then you can see over on the right,
+
+17:30.240 --> 17:34.320
+there's an example of the HTML file that we get out of this.
+
+17:34.360 --> 17:37.639
+We also get a very nicely formatted PDF file,
+
+17:37.640 --> 17:39.239
+which doesn't have that little issue
+
+17:39.240 --> 17:41.719
+with the overflow of the table.
+
+17:41.720 --> 17:43.559
+It's very nicely put together.
+
+17:43.560 --> 17:46.199
+And we even have an ASCII file.
+
+17:46.200 --> 17:47.879
+And I should also point out very quickly,
+
+17:47.880 --> 17:51.799
+while you have this one up, Lukas, after the awk code,
+
+17:51.800 --> 17:56.079
+you can see the text for the number of consortia,
+
+17:56.080 --> 17:57.839
+or the number of institutions per consortia
+
+17:57.840 --> 18:00.519
+is actually printed inline.
+
+18:00.520 --> 18:01.799
+[Lukas]: Yeah, you're very right.
+
+18:01.800 --> 18:06.119
+So this is what we had as code,
+
+18:06.120 --> 18:10.719
+and now this is nicely integrated into our text.
+
+18:10.720 --> 18:15.279
+So we got the consortium and number of institutions.
+
+18:15.280 --> 18:19.199
+You can't tell a difference between code and text.
+
+18:19.200 --> 18:20.719
+[Jonathan]: And those are automatically updated.
+
+18:20.720 --> 18:23.879
+So if another institution joins NFDI4Earth,
+
+18:23.880 --> 18:26.319
+then the next time this runs, we update the text right here.
+
+18:26.320 --> 18:28.519
+It's nothing we have to worry about.
+
+18:28.520 --> 18:30.400
+We just pull it directly out of Wikidata.
+
+18:31.840 --> 18:34.679
+[Lukas]: And for the sake of completeness,
+
+18:34.680 --> 18:37.879
+this is the ASCII file.
+
+18:37.880 --> 18:39.320
+That's in the export format.
+
+18:42.760 --> 18:46.440
+It contains also everything, code and data.
+
+18:48.360 --> 18:51.680
+Yeah, so this is what we wanted to show you,
+
+18:53.240 --> 18:56.639
+how to do some data processing,
+
+18:56.640 --> 18:58.679
+some collaborative work,
+
+18:58.680 --> 19:01.119
+documenting using org-babel.
+
+19:01.120 --> 19:03.960
+Thanks for listening.
+
+19:05.720 --> 19:07.280
+[Jonathan]: Thank you all, have a good day.