Sergiu Ivanov
6cfa66694d
networks: Remove read-org-network-make-asyn and read-org-network-make-syn.
...
I think I initially intended these functions for Boolean networks.
I'll see if I add back something similar to these when I will be
fixing example.org.
2020-11-22 21:33:16 +01:00
Sergiu Ivanov
97026a2a42
networks: Say that domain mappings may be empty.
2020-11-22 21:30:50 +01:00
Sergiu Ivanov
27bb25c201
networks: Fix signed interaction graphs.
2020-11-22 21:26:26 +01:00
Sergiu Ivanov
3e35b8e0ab
networks, IG: Use forms->boolean-network.
...
IG = interaction graph
2020-11-22 21:24:05 +01:00
Sergiu Ivanov
ec3c74b5e2
networks: Add forms->boolean-network.
2020-11-22 21:21:31 +01:00
Sergiu Ivanov
a4979d9c9f
networks: Add make-boolean-network-form.
2020-11-22 21:18:22 +01:00
Sergiu Ivanov
d5e1819fff
networks: Add make-boolean-network.
2020-11-22 21:18:14 +01:00
Sergiu Ivanov
6fd3d41c7e
networks: Update the IG-related functions.
...
IG = interaction graph
2020-11-22 21:06:33 +01:00
Sergiu Ivanov
393f1d2bba
networks: Move domain-mapping/c to Basic definitions.
2020-11-22 20:46:53 +01:00
Sergiu Ivanov
cb208a66fc
networks: Add one more comment on syntactic IG vs. IG.
2020-11-22 20:42:30 +01:00
Sergiu Ivanov
b8f29d905d
networks: Remove make-network-from-forms.
2020-11-22 00:29:36 +01:00
Sergiu Ivanov
236dca704d
networks: Update network-form->network.
2020-11-22 00:27:56 +01:00
Sergiu Ivanov
ed03015e81
network: Add domains to network-form.
2020-11-22 00:24:15 +01:00
Sergiu Ivanov
cfe710e6b2
network: Don't use make-network-from-functions in basic definitions.
2020-11-22 00:08:46 +01:00
Sergiu Ivanov
11d75bcc89
networks: Rewrite update.
2020-11-21 23:28:30 +01:00
Sergiu Ivanov
6560dcbe6c
networks: Move booleanize-state before its own test case.
2020-11-21 23:15:17 +01:00
Sergiu Ivanov
a654ac5896
network: Remove make-network-from-forms.
2020-11-21 23:13:50 +01:00
Sergiu Ivanov
a3ac1c7fcd
networks: Include domains into the network.
...
This change is breaking. The following commits will progressively fix
the whole network module.
2020-11-21 22:53:45 +01:00
Sergiu Ivanov
f1a1123cc4
networks: Make it possible to skip expensive test cases.
...
At the moment, this is particularly for skipping the tests
constructing the interaction graphs.
2020-11-21 00:53:11 +01:00
Sergiu Ivanov
fe0fbc3ed0
networks: Add build-signed-interaction-graph/form.
2020-11-19 00:22:01 +01:00
Sergiu Ivanov
0345cd3648
networks: Add build-interaction-graph/form.
2020-11-19 00:14:54 +01:00
Sergiu Ivanov
8e100c2e8b
networks: Add build-signed-interaction-graph.
2020-11-18 01:11:37 +01:00
Sergiu Ivanov
0313d81c25
network: Add another self-loop test for get-interaction-sign.
2020-11-18 01:08:40 +01:00
Sergiu Ivanov
c55113f27e
network: Bug fix in get-interaction-sign.
2020-11-18 00:46:55 +01:00
Sergiu Ivanov
195d71ed4e
networks: Remove interaction? from the tests for get-interaction-sign.
2020-11-18 00:29:45 +01:00
Sergiu Ivanov
af8428d275
network,build-interaction-graph: Use in-list.
2020-11-18 00:13:00 +01:00
Sergiu Ivanov
d190f76fdf
networks: Add build-interaction-graph.
2020-11-18 00:09:15 +01:00
Sergiu Ivanov
ff9654e5c6
network: Add get-interaction-sign.
2020-11-17 23:38:34 +01:00
Sergiu Ivanov
bfc48ff453
networks: Slightly optimize interaction?.
2020-11-15 00:02:44 +01:00
Sergiu Ivanov
8a1f4c682e
networks: Add interaction?.
2020-11-14 23:15:39 +01:00
Sergiu Ivanov
ce0925e41e
networks: Remove the old functions for building interaction graphs.
...
These functions mix interaction graphs derived from the expressions
defining the network with deriving the interactions from the dynamics,
which does not always yield the same result. Also, some functions
only worked for Boolean networks, including get-interaction-sign.
Additionally, these functions are among the first ones I wrote in dds,
so there are a couple of things which can be written in a better way.
2020-11-12 22:54:04 +01:00
Sergiu Ivanov
60be01d979
networks: Fix and simplify the comment of Inferring interaction graphs.
2020-11-12 01:11:15 +01:00
Sergiu Ivanov
5ece1f6c88
networks: list-interactions → list-syntactic-interactions.
2020-11-12 01:09:18 +01:00
Sergiu Ivanov
681ed0e732
networks: Simplify and fix the comment of update.
2020-11-12 01:08:10 +01:00
Sergiu Ivanov
88caecb98a
networks: Properly export dynamics.
2020-11-12 01:07:41 +01:00
Sergiu Ivanov
6d77052ed6
network: Explain why a network does not include the domains.
2020-11-12 01:05:27 +01:00
Sergiu Ivanov
5fd1e5cb5b
Revert "BREAKING: Make domains part of the network."
...
This reverts commit f414ae8966
2020-11-12 01:03:48 +01:00
Sergiu Ivanov
f414ae8966
BREAKING: Make domains part of the network.
...
I always keep bringing domains about for my network, which complicates
things a lot. This commit packages the domains within the network,
which will break a lot of stuff :-) The following commits will fix it all.
2020-11-12 00:58:58 +01:00
Sergiu Ivanov
cde6ee30fa
networks: build-interaction-graph → build-syntactic-interaction-graph.
...
The interaction graph is *not* usually defined in this way.
2020-11-11 15:51:24 +01:00
Sergiu Ivanov
2b60b23bf1
networks: Add group-truth-table-by-nai.
2020-11-08 23:31:11 +01:00
Sergiu Ivanov
59c7108510
networks: Add and illustrate sbn-interaction-graph.
2020-11-08 22:56:46 +01:00
Sergiu Ivanov
bc9a2bd5f8
networks: Add and illustrate pretty-print-tbn-interaction-graph.
2020-11-08 22:30:29 +01:00
Sergiu Ivanov
7af1bb8d79
networks: Add tbn-interaction-graph and explain in example.
2020-11-08 20:29:00 +01:00
Sergiu Ivanov
000c2eeba7
networks: Fix the test for print-org-sbn.
2020-11-05 23:23:48 +01:00
Sergiu Ivanov
79d3ab1ea6
networks: Add print-org-sbn.
2020-11-04 00:06:48 +01:00
Sergiu Ivanov
c4a5327b4b
networks: Fix the tests for print-org-tbn.
2020-11-02 23:05:05 +01:00
Sergiu Ivanov
af5a9d07a9
networks: Add print-org-tbn.
2020-11-02 17:58:45 +01:00
Sergiu Ivanov
0edda89642
networks: Add compact-tbn.
2020-11-02 00:08:49 +01:00
Sergiu Ivanov
2a0cfb4dcc
network,compact-tbf: Use for/hash instead of hash-filter.
2020-11-01 23:42:51 +01:00
Sergiu Ivanov
f7e44df117
networks: Add compact-tbf.
2020-10-31 00:48:00 +01:00
