diff --git a/docs/authors.html b/docs/authors.html index 39b1516..5c3a5e5 100644 --- a/docs/authors.html +++ b/docs/authors.html @@ -60,7 +60,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/index.html b/docs/index.html index 854c743..2407bc6 100644 --- a/docs/index.html +++ b/docs/index.html @@ -33,7 +33,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/news/index.html b/docs/news/index.html index c4fc010..fe6d86b 100644 --- a/docs/news/index.html +++ b/docs/news/index.html @@ -60,7 +60,7 @@ catmaid - 0.9.4 + 0.9.5 @@ -103,6 +103,14 @@

Changelog

Source: NEWS.md +
+

+catmaid 0.9.5

+ +

catmaid 0.9.4

@@ -291,6 +299,7 @@

Contents

    +
  • 0.9.5
  • 0.9.4
  • 0.9.3
  • 0.9.2
    • diff --git a/docs/reference/AV4b1.html b/docs/reference/AV4b1.html index 628bd86..f7cd3ee 100644 --- a/docs/reference/AV4b1.html +++ b/docs/reference/AV4b1.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5
diff --git a/docs/reference/as.catmaidmesh.html b/docs/reference/as.catmaidmesh.html index acbee70..b27db6a 100644 --- a/docs/reference/as.catmaidmesh.html +++ b/docs/reference/as.catmaidmesh.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5

diff --git a/docs/reference/catmaid-package.html b/docs/reference/catmaid-package.html index 7fc2dd8..6e167e3 100644 --- a/docs/reference/catmaid-package.html +++ b/docs/reference/catmaid-package.html @@ -68,7 +68,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_add_volume.html b/docs/reference/catmaid_add_volume.html index 990366a..1e04ac2 100644 --- a/docs/reference/catmaid_add_volume.html +++ b/docs/reference/catmaid_add_volume.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_connection_setenv.html b/docs/reference/catmaid_connection_setenv.html index d756e7b..10d02a5 100644 --- a/docs/reference/catmaid_connection_setenv.html +++ b/docs/reference/catmaid_connection_setenv.html @@ -68,7 +68,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_entities_from_models.html b/docs/reference/catmaid_entities_from_models.html index 7ccb7c6..e15811c 100644 --- a/docs/reference/catmaid_entities_from_models.html +++ b/docs/reference/catmaid_entities_from_models.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_fetch.html b/docs/reference/catmaid_fetch.html index a09fb04..4fdad17 100644 --- a/docs/reference/catmaid_fetch.html +++ b/docs/reference/catmaid_fetch.html @@ -65,7 +65,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_annotationlist.html b/docs/reference/catmaid_get_annotationlist.html index 90a14ca..56564ce 100644 --- a/docs/reference/catmaid_get_annotationlist.html +++ b/docs/reference/catmaid_get_annotationlist.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_annotations_for_skeletons.html b/docs/reference/catmaid_get_annotations_for_skeletons.html index 534bbf1..3d4b9b0 100644 --- a/docs/reference/catmaid_get_annotations_for_skeletons.html +++ b/docs/reference/catmaid_get_annotations_for_skeletons.html @@ -68,7 +68,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_compact_skeleton.html b/docs/reference/catmaid_get_compact_skeleton.html index 7adc3ae..12ebfce 100644 --- a/docs/reference/catmaid_get_compact_skeleton.html +++ b/docs/reference/catmaid_get_compact_skeleton.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_connector_table.html b/docs/reference/catmaid_get_connector_table.html index c485c10..f2bc31f 100644 --- a/docs/reference/catmaid_get_connector_table.html +++ b/docs/reference/catmaid_get_connector_table.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_connectors.html b/docs/reference/catmaid_get_connectors.html index fc9f803..1a67980 100644 --- a/docs/reference/catmaid_get_connectors.html +++ b/docs/reference/catmaid_get_connectors.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_connectors_between.html b/docs/reference/catmaid_get_connectors_between.html index 6e09a7b..2ca8c64 100644 --- a/docs/reference/catmaid_get_connectors_between.html +++ b/docs/reference/catmaid_get_connectors_between.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_contributor_stats.html b/docs/reference/catmaid_get_contributor_stats.html index 65284be..1e7bb8a 100644 --- a/docs/reference/catmaid_get_contributor_stats.html +++ b/docs/reference/catmaid_get_contributor_stats.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_label_stats.html b/docs/reference/catmaid_get_label_stats.html index 9a08c1a..4c2da57 100644 --- a/docs/reference/catmaid_get_label_stats.html +++ b/docs/reference/catmaid_get_label_stats.html @@ -65,7 +65,7 @@ catmaid - 0.9.4 + 0.9.5 @@ -171,8 +171,8 @@

Examp arrange(desc(n)) multiple_soma_info = soma_labels %>% - filter(skeletonID%in% multiple_soma$skeletonID)
head(catmaid_get_all_labels())
#> [1] "ends" "synapse?" "TO LEFT ANTE BRANCH" -#> [4] "TO RIGHT ANTE BRANCH" "synapse onto glia?" "TO RIGHT POST BRANCH"
+ filter(skeletonID%in% multiple_soma$skeletonID)
head(catmaid_get_all_labels())
#> [1] "ends" "not a branch" "end of series" "uncertain end" +#> [5] "lost" "nucleus"
diff --git a/docs/reference/catmaid_get_neuronnames.html b/docs/reference/catmaid_get_neuronnames.html index 6b1765d..fa82945 100644 --- a/docs/reference/catmaid_get_neuronnames.html +++ b/docs/reference/catmaid_get_neuronnames.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_node_count.html b/docs/reference/catmaid_get_node_count.html index beeee04..e95195b 100644 --- a/docs/reference/catmaid_get_node_count.html +++ b/docs/reference/catmaid_get_node_count.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_review_status.html b/docs/reference/catmaid_get_review_status.html index 5e6b10b..1164b59 100644 --- a/docs/reference/catmaid_get_review_status.html +++ b/docs/reference/catmaid_get_review_status.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_treenode_table.html b/docs/reference/catmaid_get_treenode_table.html index 558b6b7..96eadb7 100644 --- a/docs/reference/catmaid_get_treenode_table.html +++ b/docs/reference/catmaid_get_treenode_table.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_treenodes_detail.html b/docs/reference/catmaid_get_treenodes_detail.html index dca8c33..c245056 100644 --- a/docs/reference/catmaid_get_treenodes_detail.html +++ b/docs/reference/catmaid_get_treenodes_detail.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 @@ -190,14 +190,14 @@

See a

Examples

# details for 3 nodes from two different skeletons
-catmaid_get_treenodes_detail(c(9943214L, 25069047L, 12829015L))
#>   treenode_id parent_id       x       y     z confidence radius     skid
-#> 1     9943214        NA 65439.8 20611.2 41250          5   1911  4453485
-#> 2    25069047  10983327 53296.5 14791.1 42650          5     -1  4453485
-#> 3    12829015  12829014 59222.2 65869.2 51150          5     -1 10418394
+catmaid_get_treenodes_detail(c(9943214L, 25069047L, 12829015L))
#>   treenode_id parent_id      x      y      z confidence radius    skid
+#> 1     9943214   9943217 419085 175627 120280          5     -1 4116825
+#> 2    25069047  25069046 426264 244230 143920          5     -1 7138957
+#> 3    12829015  12829013 442500 147757 175160          5     -1 3821611
 #>   edition_time user_id
-#> 1   1496315535      18
-#> 2   1525270313      71
-#> 3   1523630041      18

+#> 1   1498514622     113
+#> 2   1521466478     134
+#> 3   1496347172     150

 # example label search
 tosoma=catmaid_get_treenodes_detail("to soma")
#> Error in catmaid_error_check(nodeinfo): invalid literal for int() with base 10: 'to soma'	type: ValueError
diff --git a/docs/reference/catmaid_get_user_list.html b/docs/reference/catmaid_get_user_list.html index fe22862..d187ac0 100644 --- a/docs/reference/catmaid_get_user_list.html +++ b/docs/reference/catmaid_get_user_list.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_volume.html b/docs/reference/catmaid_get_volume.html index a9ba910..c36dee4 100644 --- a/docs/reference/catmaid_get_volume.html +++ b/docs/reference/catmaid_get_volume.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_get_volumelist.html b/docs/reference/catmaid_get_volumelist.html index 18633cd..4ca5beb 100644 --- a/docs/reference/catmaid_get_volumelist.html +++ b/docs/reference/catmaid_get_volumelist.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_login.html b/docs/reference/catmaid_login.html index c098001..700d34d 100644 --- a/docs/reference/catmaid_login.html +++ b/docs/reference/catmaid_login.html @@ -74,7 +74,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_parse_url.html b/docs/reference/catmaid_parse_url.html index d02ff8f..90e2952 100644 --- a/docs/reference/catmaid_parse_url.html +++ b/docs/reference/catmaid_parse_url.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_query_by_name.html b/docs/reference/catmaid_query_by_name.html index 6a6ab80..68a6dca 100644 --- a/docs/reference/catmaid_query_by_name.html +++ b/docs/reference/catmaid_query_by_name.html @@ -74,7 +74,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_query_connected.html b/docs/reference/catmaid_query_connected.html index ae20030..d2c92ab 100644 --- a/docs/reference/catmaid_query_connected.html +++ b/docs/reference/catmaid_query_connected.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_rename_neuron.html b/docs/reference/catmaid_rename_neuron.html index 869dc79..a96900e 100644 --- a/docs/reference/catmaid_rename_neuron.html +++ b/docs/reference/catmaid_rename_neuron.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_skids.html b/docs/reference/catmaid_skids.html index 478b557..6792951 100644 --- a/docs/reference/catmaid_skids.html +++ b/docs/reference/catmaid_skids.html @@ -64,7 +64,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_user_history.html b/docs/reference/catmaid_user_history.html index e6dc536..f5d226f 100644 --- a/docs/reference/catmaid_user_history.html +++ b/docs/reference/catmaid_user_history.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/catmaid_version.html b/docs/reference/catmaid_version.html index b4688d0..218c8e1 100644 --- a/docs/reference/catmaid_version.html +++ b/docs/reference/catmaid_version.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/connectors.html b/docs/reference/connectors.html index 653e088..747c1bc 100644 --- a/docs/reference/connectors.html +++ b/docs/reference/connectors.html @@ -65,7 +65,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/copy_tags_connectors.html b/docs/reference/copy_tags_connectors.html index b15dbd1..732ed00 100644 --- a/docs/reference/copy_tags_connectors.html +++ b/docs/reference/copy_tags_connectors.html @@ -65,7 +65,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/index.html b/docs/reference/index.html index dcf2ca5..ac7a632 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -60,7 +60,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/nsoma.html b/docs/reference/nsoma.html index 7273205..301a25a 100644 --- a/docs/reference/nsoma.html +++ b/docs/reference/nsoma.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 @@ -166,20 +166,8 @@

Examp #> 0 0 0 0 0 0 0 0 0 0 0 #> TL4R TS7L TT27R VA15R VA20R VB37L VB58L #> 0 0 0 0 0 0 0
data("AV4b1") -nsoma(AV4b1)
#> [1] 1
nsoma("ORN PNs")
#> Warning: CATMAID version: 2018.11.09-31f4a19f60 could not be parsed! -#> I will assume that you are running the latest version of CATMAID!
#> -#> 3486381 8021456 4354933 4493199 4651929 7843730 8399890 7515491 -#> 1 1 1 1 1 1 1 1 -#> 7092417 7107433 7198338 7852250 7845346 7851153 7864823 7865652 -#> 1 1 1 1 1 1 1 1 -#> 7865696 7865767 7873135 7916593 7934904 7935088 8140109 8243455 -#> 1 1 1 1 1 1 1 1 -#> 8244723 8244823 8245014 8245146 8245513 8245692 8245869 8246081 -#> 1 1 2 1 1 1 1 1 -#> 8246750 8247451 8248631 8252067 8253413 8256186 11279244 13589251 -#> 1 1 1 1 1 1 1 1 -#> 14604028 16259595 -#> 1 1
# NOT RUN { +nsoma(AV4b1)
#> [1] 1
nsoma("ORN PNs")
#> Warning: Assumed you want a complete annotation but found no matches for query "annotation:^ORN PNs$"!
#> Warning: CATMAID version: 2018.11.09-254-g70f32ec could not be parsed! +#> I will assume that you are running the latest version of CATMAID!
#> integer(0)
# NOT RUN { nsoma(3486381) # } diff --git a/docs/reference/plot3d.catmaidneuron.html b/docs/reference/plot3d.catmaidneuron.html index 5ffa251..9bb3403 100644 --- a/docs/reference/plot3d.catmaidneuron.html +++ b/docs/reference/plot3d.catmaidneuron.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/read.neuron.catmaid.html b/docs/reference/read.neuron.catmaid.html index eb2b91d..705abc8 100644 --- a/docs/reference/read.neuron.catmaid.html +++ b/docs/reference/read.neuron.catmaid.html @@ -65,7 +65,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/read_catmaid_selection.html b/docs/reference/read_catmaid_selection.html index 4ad4c26..2f31bf7 100644 --- a/docs/reference/read_catmaid_selection.html +++ b/docs/reference/read_catmaid_selection.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5 diff --git a/docs/reference/write_catmaid_selection.html b/docs/reference/write_catmaid_selection.html index 3cfb973..54a27e1 100644 --- a/docs/reference/write_catmaid_selection.html +++ b/docs/reference/write_catmaid_selection.html @@ -63,7 +63,7 @@ catmaid - 0.9.4 + 0.9.5