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Update of random management #30

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44e8411
Rename topology to spatial
sarakonradi Mar 18, 2020
3871ddc
Move spatial folder to doc/guides
sarakonradi Mar 18, 2020
319b71f
Move guide into doc/guides/spatial
sarakonradi Mar 18, 2020
bfeb65b
Update cross-reference in Tutorial Part 4
sarakonradi Mar 18, 2020
51f70f9
Update figure and script links in guide
sarakonradi Mar 18, 2020
b654761
Update index links
sarakonradi Mar 18, 2020
8865084
Update index title characters
sarakonradi Mar 18, 2020
e4f906f
Move troubleshooting before getting_help
sarakonradi Mar 18, 2020
125fa97
Added beta normalization factor header to CMake source file list
hakonsbm Mar 19, 2020
19af7c2
Merge pull request #1407 from hakonsbm/beta_normalization_function
heplesser Mar 19, 2020
644c6f0
Update overview title
sarakonradi Mar 19, 2020
75179fb
Update detailed transition guide title
sarakonradi Mar 20, 2020
9c9669e
Move detailed guide to doc/guides
sarakonradi Mar 20, 2020
039e35b
Rename guide files
sarakonradi Mar 20, 2020
d4df0e8
Place both files in doc/guides/nest2_to_nest3
sarakonradi Mar 20, 2020
a3e2c17
Update link in overview file
sarakonradi Mar 20, 2020
6a122b2
Update See also link in detailed transition guide
sarakonradi Mar 20, 2020
c0ee8a2
Add links to guides/index.rst
sarakonradi Mar 20, 2020
a015ca3
Change heading to Transition guides to NEST 3.0
sarakonradi Mar 20, 2020
ad1add3
Update heading characters
sarakonradi Mar 20, 2020
ae9fe7a
Update overview link in doc/index.rst
sarakonradi Mar 20, 2020
02c884c
Update detailed transition guide link in doc/index.rst
sarakonradi Mar 20, 2020
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Update heading characters
sarakonradi Mar 20, 2020
3e98d14
Update heading characters in detailed transition guide
sarakonradi Mar 20, 2020
2592b63
Add overview guide to toctree
sarakonradi Mar 20, 2020
872b995
Change nest to NEST in overview text
sarakonradi Mar 20, 2020
6c9029a
Update heading characters
sarakonradi Mar 20, 2020
2b2673d
Rename Part 4 tutorial to part_4_spatially_structured_networks.rst
sarakonradi Mar 20, 2020
5642848
Update link in tutorials/index.rst
sarakonradi Mar 20, 2020
e971048
Update toctree link in doc/guides/spatial/index.rst
sarakonradi Mar 20, 2020
057e94c
Update tutorial link in doc/guides/spatial/index.rst
sarakonradi Mar 20, 2020
d3d110f
Merge pull request #1411 from steffengraber/doc-environment
heplesser Mar 20, 2020
2e996d8
Update link in guides/index.rst
sarakonradi Mar 20, 2020
b2abd03
Update visualization functions link in part 4 tutorial
sarakonradi Mar 20, 2020
a501fa8
Remove 4.2
sarakonradi Mar 20, 2020
c83e209
Add regula falsi method, correct equation for calculation of membrane
stinebuu Mar 20, 2020
64369f5
Merge branch 'master' into nest-3-microcircuit
jhnnsnk Mar 20, 2020
5571b5e
Merge branch 'nest-3-microcircuit' of github.com:jhnnsnk/nest-simulat…
jhnnsnk Mar 20, 2020
0a5aae4
Add section "Recommendations for benchmarking" to README
jhnnsnk Mar 20, 2020
385b849
Formatting README (admonition doesn't work on github)
jhnnsnk Mar 20, 2020
321616b
Update reference_data
jhnnsnk Mar 20, 2020
8b6163d
Add collaborators to README
jhnnsnk Mar 20, 2020
3248fb1
Merge branch 'nest-3-microcircuit' of github.com:jhnnsnk/nest-simulat…
jhnnsnk Mar 20, 2020
5256154
Merge pull request #1468 from sarakonradi/fix_issue_1408
heplesser Mar 22, 2020
1715ed9
Clarify GitHub Git distinction
sarakonradi Mar 23, 2020
1a00225
Add missing tilde underneath title
sarakonradi Mar 23, 2020
cf7d67d
Reword intro in index.rst
sarakonradi Mar 23, 2020
ada47ec
Make sentence on visiting overview more direct
sarakonradi Mar 23, 2020
6ebe27a
Make detailed transition guide sentence more direct
sarakonradi Mar 23, 2020
d46d0ec
Change verb to read
sarakonradi Mar 23, 2020
7c17ca3
use exp instead of expm1*x + x
stinebuu Mar 24, 2020
48a01b9
gamma_{ex, in, sq_ex, sq_in} no longer needed as we use propagator_*
stinebuu Mar 24, 2020
8b3858f
Throw exception when Regula falsi method does not converge.
stinebuu Mar 24, 2020
31b1c21
Update output of tests as the test does not test alpha_canon.
stinebuu Mar 24, 2020
2fe051d
Create documentation_improvement.md
sarakonradi Mar 24, 2020
362afcd
Add name and about
sarakonradi Mar 24, 2020
4feb4fc
Add describe the flaw section
sarakonradi Mar 24, 2020
caddf02
Update title characters
sarakonradi Mar 24, 2020
1509d75
Add improvement section
sarakonradi Mar 24, 2020
24cbda9
Use Regula Falsi in iaf_psc_exp_ps instead of Bisectioning
stinebuu Mar 24, 2020
7511774
Update improvement section
sarakonradi Mar 24, 2020
b69315c
Add supporting materials section
sarakonradi Mar 24, 2020
dd1100d
Create additional context section
sarakonradi Mar 24, 2020
8d06fe3
Reword about section
sarakonradi Mar 24, 2020
29c59d1
Reword about improvement section
sarakonradi Mar 24, 2020
56dabce
Use exp()*x instead of expm1()*x + x in iaf_psc_exp_ps
stinebuu Mar 24, 2020
683ff5a
Add desktop/environment section
sarakonradi Mar 24, 2020
6714751
Update desktop/environment section
sarakonradi Mar 24, 2020
0b2606a
Use Regula Falsi method instead of Bisectioning for
stinebuu Mar 24, 2020
1699a9a
Use propagator functions, and exp()*x instead of exp()*x + x
stinebuu Mar 24, 2020
063169f
clang format
stinebuu Mar 24, 2020
6f3a325
Minor clean-up
stinebuu Mar 24, 2020
17e00bf
Improved handling of additional synapse parameters with connect_arrays
hakonsbm Mar 24, 2020
1f0645d
Remove obsolete SubnetExpected exception.
stinebuu Mar 24, 2020
d71e2e2
Removed references to 'subnet'
stinebuu Mar 25, 2020
b4198f7
aded equation to documentation of rate_transformer
ddahmen Mar 25, 2020
eb95cad
Change names and add comments
stinebuu Mar 25, 2020
79433a0
Update path characters
sarakonradi Mar 25, 2020
04dcf03
Remove duplicate please
sarakonradi Mar 25, 2020
fb1467d
Change index.rst to contents.rst
sarakonradi Mar 26, 2020
940c4e5
added create commands to rate model documentations and information co…
ddahmen Mar 26, 2020
05dea27
Create new .rst file for developer documentation
sarakonradi Mar 27, 2020
986ecf9
Rename workflow file to user_documentation_workflow.rst
sarakonradi Mar 27, 2020
4283b06
Move workflow files to documentation_workflow folder
sarakonradi Mar 27, 2020
118465f
Edit developer documentation workflow
sarakonradi Mar 27, 2020
e037a09
Remove developer documentation block from user documentation workflow
sarakonradi Mar 27, 2020
7a20c95
Reference developer doc
sarakonradi Mar 27, 2020
8b29b7e
Add note
sarakonradi Mar 27, 2020
6981fd4
Update note
sarakonradi Mar 27, 2020
6a915b5
Add developer documentation link
sarakonradi Mar 27, 2020
8b9e076
Update contents.rst
sarakonradi Mar 27, 2020
9ad844c
Update image link
sarakonradi Mar 27, 2020
594ec3d
Update developer doc link
sarakonradi Mar 27, 2020
e40362c
Move regula_falsi to libnestutil
stinebuu Mar 27, 2020
3ac01ca
Reword note
sarakonradi Mar 27, 2020
b40fc75
Update developer documentation title
sarakonradi Mar 27, 2020
f1e479a
Update heading characters
sarakonradi Mar 27, 2020
670b680
Reformat nestrc sentence
sarakonradi Mar 27, 2020
ad1c9c5
Separate into two note boxes
sarakonradi Mar 27, 2020
74447b7
Update note wording
sarakonradi Mar 27, 2020
a98b417
Add What you need to know title
sarakonradi Mar 27, 2020
1ba7dae
Add instructions title
sarakonradi Mar 27, 2020
0a0c18e
Remove bold formatting
sarakonradi Mar 27, 2020
1c17da9
Add code blocks
sarakonradi Mar 27, 2020
3a789f6
Reformat doc to doc
sarakonradi Mar 27, 2020
3390b79
Add Helpdesk heading
sarakonradi Mar 27, 2020
8917eca
Update code blocks
sarakonradi Mar 27, 2020
8d5cb5b
Correct installation link
sarakonradi Mar 27, 2020
376cdc3
Update generate html code block
sarakonradi Mar 27, 2020
ce4ac90
Update What you need to know
sarakonradi Mar 27, 2020
cb51dc2
Restructure first two sections
sarakonradi Mar 27, 2020
b8d3fcc
Capitalize Doxygen
sarakonradi Mar 27, 2020
5deaac7
Add user documentation note
sarakonradi Mar 27, 2020
0791cb3
Capitalize user in User documentation workflow
sarakonradi Mar 27, 2020
067a6f1
Update user documentation link
sarakonradi Mar 27, 2020
c5eef57
Update punctuation
sarakonradi Mar 27, 2020
1889058
Write user and developer documentation in bold
sarakonradi Mar 27, 2020
8ee7413
Add label syntax
sarakonradi Mar 27, 2020
6091730
iaf_psc_exp_ps and iaf_psc_exp_lossless use general regula falsi
stinebuu Mar 27, 2020
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Only point to node
stinebuu Mar 27, 2020
89fc67f
Merge branch 'master' into documentation_workflow
sarakonradi Mar 30, 2020
916325c
Create workflow index
sarakonradi Mar 30, 2020
86657ff
Add workflows title
sarakonradi Mar 30, 2020
2e97c93
Add index introduction
sarakonradi Mar 30, 2020
27b4321
Add toctree
sarakonradi Mar 30, 2020
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Add workflow files to toctree
sarakonradi Mar 30, 2020
3ab16af
Edit introductory text
sarakonradi Mar 30, 2020
ebb9bac
Link workflow index in contents.rst
sarakonradi Mar 30, 2020
a62f07e
Rename index title to Documentation workflows
sarakonradi Mar 30, 2020
47503e0
Update heading of user_documentation_workflow.rst
sarakonradi Mar 30, 2020
98f8db8
Rename toctree titles
sarakonradi Mar 30, 2020
6543407
Remove toctree caption
sarakonradi Mar 30, 2020
25e7fc7
Update toctree spacing
sarakonradi Mar 30, 2020
2887990
Make index.rst text more direct
sarakonradi Mar 30, 2020
bdc156c
Move conda update above environment creation
sarakonradi Mar 30, 2020
e18e4c5
Add brew instructions for macOS
sarakonradi Mar 30, 2020
72dee38
Move RST sentence to first section
sarakonradi Mar 30, 2020
51f97e8
Write output based on neuronlist in test_iaf_ps_dc_accuracy
stinebuu Mar 31, 2020
ecbf9c2
Fix error in serializable
babsey Mar 31, 2020
62ab054
Fix remainig Hz -> spikes/s
jhnnsnk Mar 31, 2020
118ca38
Import to_json in hl_api_models
babsey Mar 31, 2020
3e3a1e7
Import to_json in hl_api_info
babsey Mar 31, 2020
9924c90
Tidy up SLI code in accuracy tests.
heplesser Mar 31, 2020
e49ac09
Merge pull request #7 from heplesser/stine_1272
stinebuu Mar 31, 2020
6ac057b
resolved comments by jstapmanns and sarakonradi
ddahmen Mar 31, 2020
1d235cc
reverted accidental changes to doc/Makefile
ddahmen Mar 31, 2020
e999771
Fix according jougs
babsey Mar 31, 2020
5f7854e
Merge pull request #1484 from ddahmen/fix_issue_#1467
heplesser Apr 1, 2020
daefd5f
Change to reference
stinebuu Apr 1, 2020
273854c
Update comment
stinebuu Apr 1, 2020
03156f9
Merge remote-tracking branch 'origin/issue1272_infinite_loop' into is…
stinebuu Apr 1, 2020
7495065
Update comments
stinebuu Apr 1, 2020
1f62124
Merge pull request #1475 from sarakonradi/fix_issue_1450
heplesser Apr 1, 2020
1d1b3a9
Add const
stinebuu Apr 1, 2020
4fb2b1b
Merge pull request #1482 from stinebuu/SubnetExpected
heplesser Apr 1, 2020
814c176
Change 'update' to 'improvement'
sarakonradi Apr 1, 2020
6454743
Add new workflow image to _static/img folder
sarakonradi Apr 2, 2020
c086691
Change image link in user_documentation_workflow
sarakonradi Apr 2, 2020
1f799ef
Update workflow image size
sarakonradi Apr 2, 2020
61f73d7
Switch 'Rendering HTML' and 'Editing and creating pages'
sarakonradi Apr 2, 2020
5df0531
Remove point 4 from 'Rendering HTML'
sarakonradi Apr 2, 2020
def7608
Add point 5 to 'Editing and creating pages'
sarakonradi Apr 2, 2020
9278f5f
Add RST sentence to 'Editing and creating pages'
sarakonradi Apr 2, 2020
37aed31
Add PR on how to create PR against NEST
sarakonradi Apr 2, 2020
826daa1
Reword RST sentence
sarakonradi Apr 2, 2020
32fa72c
Change 'filename' to 'index'
sarakonradi Apr 2, 2020
ca69d07
Make install paths consistent
sarakonradi Apr 2, 2020
a225af1
Update RST quick reference link
sarakonradi Apr 2, 2020
0a6bac3
Merge pull request #1444 from jhnnsnk/nest-3-microcircuit
terhorstd Apr 2, 2020
2258b3f
Remove old workflow graphic
sarakonradi Apr 2, 2020
ea78a30
Rename workflow image file
sarakonradi Apr 2, 2020
d416d3c
Update workflow image link
sarakonradi Apr 2, 2020
1c43cb2
Removed unused InterpOrder
stinebuu Apr 3, 2020
ac745e8
Update comment in regula_falsi.h
stinebuu Apr 3, 2020
9a6d0e2
Update docstring in iaf_psc_exp_ps.h
stinebuu Apr 3, 2020
5330a78
Merge remote-tracking branch 'origin/issue1272_infinite_loop' into is…
stinebuu Apr 3, 2020
958efb0
Update comments
stinebuu Apr 3, 2020
192dbc0
Print correct units in tests
stinebuu Apr 3, 2020
52abb3f
Consistent computation of membrane potential
stinebuu Apr 3, 2020
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Throw exception if regula falsi does not converge
stinebuu Apr 3, 2020
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Return root if Regula Falsi converge, throw NumericalInstability if not
stinebuu Apr 3, 2020
6820f4e
Update doc/documentation_workflow/user_documentation_workflow.rst
sarakonradi Apr 3, 2020
ae52013
Merge pull request #1439 from sarakonradi/documentation_workflow
heplesser Apr 3, 2020
3d6eb04
added quoting to correctly handle spaces in filenames
terhorstd Apr 3, 2020
d81f813
fixed tons of quotes
terhorstd Apr 5, 2020
a56bd40
fixed more quotes for filenames
terhorstd Apr 5, 2020
2ef12f0
found last missing quote
terhorstd Apr 5, 2020
59cf3c5
removed debugging output
terhorstd Apr 5, 2020
188e4de
Removed references to bisectioning
stinebuu Apr 6, 2020
0bdcf0f
Fix issue when passing a negative value to operator+= and operator-=
hakonsbm Apr 6, 2020
c07f764
Added and refined BlockVector operators
hakonsbm Apr 6, 2020
d6c1fb1
Improved and added additional C++ tests
hakonsbm Apr 6, 2020
ed9bd69
Remove Dependencies section from conversion guide
sarakonradi Apr 6, 2020
0e35d02
Change Python to Python 3.X in linux_install.rst
sarakonradi Apr 6, 2020
51ef409
Change Matplotlib to Matplotlib 3.X in linux_install.rst
sarakonradi Apr 6, 2020
d094e51
Update CMake note
sarakonradi Apr 6, 2020
382c6d3
Merge pull request #1481 from stinebuu/issue1272_infinite_loop
heplesser Apr 6, 2020
a20c43d
Fix broken image links
sarakonradi Apr 6, 2020
f488bbe
Adjust NEST3_24_0.png image size
sarakonradi Apr 6, 2020
3b57c96
Using single header variant for Boost tests
hakonsbm Apr 6, 2020
c180b16
Readded missing fi
hakonsbm Apr 6, 2020
b049729
Make desktop/environment information more relevant to documentation
sarakonradi Apr 7, 2020
81f716d
Add kwargs to to_json()
babsey Apr 7, 2020
9910c39
consider `return-early` pattern
babsey Apr 7, 2020
89b2ce5
Fix merge conflicts
sarakonradi Apr 7, 2020
d08e99f
Merge branch 'master' into connection_generation_from_data
hakonsbm Apr 7, 2020
ef6c904
Merge pull request #1492 from babsey/serializable
heplesser Apr 7, 2020
1a182af
Fix underlinings in community.rst
sarakonradi Apr 8, 2020
9cee53c
Remove 'NEST' where not needed
sarakonradi Apr 8, 2020
f1c8a3c
Add documentation workflow sentence to index.rst
sarakonradi Apr 8, 2020
02f65c7
Add documentation workflow sentence to contribute/index.rst
sarakonradi Apr 8, 2020
ddd20f8
Update hyperlinks in troubleshooting.rst
sarakonradi Apr 8, 2020
86c7eef
add ifdef to mymodule audio backend import
clinssen Apr 9, 2020
f92d109
Merge pull request #1434 from sarakonradi/update_toctree
heplesser Apr 14, 2020
12d998c
Merge branch 'master' into move_dependencies
sarakonradi Apr 14, 2020
31a596b
Replaced TODO with function definitions without implementations
hakonsbm Apr 14, 2020
4259245
Improved C++ tests
hakonsbm Apr 14, 2020
8e0d24e
Removed C++ test from nest namespace
hakonsbm Apr 14, 2020
cf7d6a8
Changed Travis Boost installation from move to forced copy and remove
hakonsbm Apr 14, 2020
c2059b3
Merge pull request #1500 from terhorstd/fix-1048-do_tests
heplesser Apr 15, 2020
de2b26d
Merge branch 'master' into move_dependencies
sarakonradi Apr 15, 2020
7253722
Add px unit as suggested by @clinssen
sarakonradi Apr 15, 2020
b917a19
modified error messages when providing NumPy arrays with dimensions != 1
alberto-antonietti Apr 15, 2020
0e7175b
added check for zero-dimensional sources and target arrays
alberto-antonietti Apr 15, 2020
04211cd
Merge pull request #28 from alberto-antonietti/connection_generation_…
hakonsbm Apr 16, 2020
1c6a096
Add python sentence to note
sarakonradi Apr 16, 2020
6d59400
Move note above 'See also'
sarakonradi Apr 16, 2020
53c26b5
Update note on Python 2
sarakonradi Apr 16, 2020
29d4085
Remove duplicate sentence in overview guide
sarakonradi Apr 16, 2020
d2156d8
Add bullet about Python 2 to detailed transition guide
sarakonradi Apr 16, 2020
c3f2842
Remove extra note in nest2_to_nest3_overview.rst
sarakonradi Apr 16, 2020
83eb406
Update spatial link in models/index.rst
sarakonradi Apr 16, 2020
f25884d
Fix transition guide link in guides/spatial/index.rst
sarakonradi Apr 16, 2020
912810f
Clarify topology module sentence in ref_material/pynest_apis.rst
sarakonradi Apr 16, 2020
723cb1c
Merge pull request #1501 from sarakonradi/move_dependencies
stinebuu Apr 17, 2020
a056418
Merge pull request #1517 from sarakonradi/update_topology_references
heplesser Apr 17, 2020
f529b42
Merge pull request #1429 from hakonsbm/connection_generation_from_data
heplesser Apr 20, 2020
6de0daa
handle libboost same as all other libraries
gtrensch Apr 20, 2020
7d62091
constistent directory name for boost install directory
gtrensch Apr 20, 2020
9493267
Merge pull request #1512 from clinssen/mymodule_ifdef
heplesser Apr 21, 2020
a0d278c
Merge pull request #29 from gtrensch/gtrensch_boost_blockvector_fix
hakonsbm Apr 21, 2020
79f8df2
Merge pull request #1480 from sarakonradi/fix_issue_1470
terhorstd Apr 21, 2020
984ebc3
Implemented SeedSequence-based seeding scheme.
heplesser Apr 21, 2020
1fb82b4
Merge branch 'master' into hakonsbm_cpp11-librandom
heplesser Apr 21, 2020
61c7a96
Removed some tests that are no longer relevant and updated others.
heplesser Apr 21, 2020
c239c9d
Introduced thread-synced RNGs; renamed global_rng and thread_rng.
heplesser Apr 22, 2020
e2dbcc9
Revised check of rng synchrony.
heplesser Apr 22, 2020
df49bd5
Merge branch 'boost_blockvector_fix' of https://github.com/hakonsbm/n…
heplesser Apr 22, 2020
8dec976
Changed seeds in some tests since seed value 0 is no longer accepted.
heplesser Apr 22, 2020
d224bb2
Updated reference data for one GIF test.
heplesser Apr 23, 2020
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sarakonradi committed Mar 18, 2020

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commit b6547619318a611d36bfe206eed8776a7508e2e4
12 changes: 6 additions & 6 deletions doc/guides/spatial/index.rst
Original file line number Diff line number Diff line change
@@ -9,21 +9,21 @@ Here you can find how to build complex, layered networks in NEST.
This module is removed in NEST 3.0, and all functionality of topology
is now in the main ``nest`` module.

See the :doc:`guide to NEST 3.0 <../guides/from_nest2_to_nest3>` for more information.
See the :doc:`guide to NEST 3.0 <../from_nest2_to_nest3>` for more information.

* If you've never used spatially-structured networks before, we recommend you
check out our :doc:`PyNEST tutorial on the topic <../tutorials/pynest_tutorial/part_4_topologically_structured_networks>`
check out our :doc:`PyNEST tutorial on the topic <../../tutorials/pynest_tutorial/part_4_topologically_structured_networks>`

* We also have a :doc:`comprehensive guide into spatially-structured networks <../guides/guide_spatially_structured_networks>`
* We also have a :doc:`comprehensive guide into spatially-structured networks <../spatial/guide_spatially_structured_networks>`

* And we have a large selection of **examples**, including a detailed example using the Hill and Tononi model.
Check them out in our :doc:`Spatial networks examples <../examples/index>` section.
Check them out in our :doc:`Spatial networks examples <../../examples/index>` section.

.. toctree::
:hidden:
:maxdepth: 1

../tutorials/pynest_tutorial/part_4_topologically_structured_networks
../examples/index
../../tutorials/pynest_tutorial/part_4_topologically_structured_networks
../../examples/index