We used to open all PdbReaders in a search result and then interate over
them. This used a lot of heap space (> 8GB) for 400k files.
Now the PdbReaders are only opened while they are used. Heap usage was
less than 550 while reading more than 400k files.
Added buttons to shift left/right, so that you do not have to
edit the date offset.
I decided to replace icons.css with font-awesome.min.css,
because I am too lazy to add the CSS for the icons every
time I use a new icon.
1. Log the exception in PdbFileIterator with a logger instead
of just printing it to stderr.
2. Increase log level for exceptions when inserting entries.
3. Log exception when creation of entry failed in TcpIngestor.
We are using ANTLR listeners to find out where in the
query the cursor is. Then we generate a list of keys/values
that might fit at that position. With that information we
can generate new queries and sort them by the number
of results they yield.
This is done in preparation for the proposal API.
In order to compute proposals we need to consume the
API of the DataStore, but the code does not need to
be in the DataStore.
Extracting the API allows us to separate these concerns.
LuDB has a few disadvantages.
1. Most notably disk space. H2 wastes a lot of valuable disk space.
For my test data set with 44 million entries it is 14 MB
(sometimes a lot more; depends on H2 internal cleanup). With
data-store it is 15 KB.
Overall I could reduce the disk space from 231 MB to 200 MB (13.4 %
in this example). That is an average of 4.6 bytes per entry.
2. Speed:
a) Liquibase is slow. The first time it takes approx. three seconds
b) Query and insertion. with data-store we can insert entries
up to 1.6 times faster.
Data-store uses a few tricks to save disk space:
1. We encode the tags into the file names.
2. To keep them short we translate the key/value of the tag into
shorter numbers. For example "foo" -> 12 and "bar" to 47. So the
tag "foo"/"bar" would be 12/47.
We then translate this number into a numeral system of base 62
(a-zA-Z0-9), so it can be used for file names and it is shorter.
That way we only have to store the mapping of string to int.
3. We do that in a simple tab separated file.
