1.0.0

Fix omitted metrics bug introduced with concurrency. If an ataqv output file contained more than one set of metrics, only the first would be added to the viewer. Add table export to CSV. Add fly, worm, yeast autosomes.
ParkerLab · Dec 8, 2017 · 0c9571f · 0c9571f
1 parent 31fbe3e
commit 0c9571f
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Showing 47 changed files with 342 additions and 78 deletions.
diff --git a/COPYRIGHT b/COPYRIGHT
@@ -85,6 +85,32 @@ And DataTables (https://datatables.net/), MIT-licensed:
     OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
     DEALINGS IN THE SOFTWARE.
 
+For the DataTables Excel export, JSZip (https://github.com/Stuk/jszip)
+is used; it's available under the MIT (included here) or GPLv3 license:
+
+    Copyright (c) 2009-2016 Stuart Knightley, David Duponchel, Franz
+    Buchinger, António Afonso
+
+    Permission is hereby granted, free of charge, to any person
+    obtaining a copy of this software and associated documentation
+    files (the "Software"), to deal in the Software without
+    restriction, including without limitation the rights to use, copy,
+    modify, merge, publish, distribute, sublicense, and/or sell copies
+    of the Software, and to permit persons to whom the Software is
+    furnished to do so, subject to the following conditions:
+
+    The above copyright notice and this permission notice shall be
+    included in all copies or substantial portions of the Software.
+
+    THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+    EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+    MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
+    NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
+    HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
+    WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+    OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
+    DEALINGS IN THE SOFTWARE.
+
 Also, normalize.css (https://github.com/necolas/normalize.css),
 MIT-licensed:
 

diff --git a/Makefile b/Makefile
@@ -2,7 +2,7 @@
 # VARIABLES
 #
 
-VERSION = 0.9.5
+VERSION = 1.0.0
 
 #
 # PATHS
@@ -205,9 +205,8 @@ install-ataqv: $(BUILD_DIR)/ataqv
 	install -m 0755 build/ataqv $(DESTDIR)$(prefix)/bin
 
 install-scripts: $(SCRIPTS)
-	for f in $^; do sed -e 's/{{VERSION}}/$(VERSION)/g' $$f > $(BUILD_DIR)/$$(basename $$f); done
 	install -d -m 0755 $(DESTDIR)$(prefix)/bin
-	install -m 0755 $^ $(DESTDIR)$(prefix)/bin
+	for f in $^; do sed -e 's/{{VERSION}}/$(VERSION)/g' $$f > $(BUILD_DIR)/$$(basename $$f); install -m 0755 $(BUILD_DIR)/$$(basename $$f) $(DESTDIR)$(prefix)/bin; done
 
 install-web: $(WEB_DIR)
 	install -d -m 0755 $(DESTDIR)$(prefix)/share/ataqv/web

diff --git a/debian/changelog b/debian/changelog
@@ -1,14 +1,27 @@
+ataqv (1.0.0-1) unstable; urgency=low
+
+  * Fix omitted metrics bug introduced with concurrency. If an ataqv
+    output file contained more than one set of metrics, only the first
+    would be added to the viewer.
+
+  * Add table export to CSV.
+
+  * Add fly, worm, yeast autosomes.
+
+ -- Parker Lab Software <parkerlab-software@umich.edu>  Fri, 08 Dec 2017 08:30:00 -0500
+
+
 ataqv (0.9.5-1) unstable; urgency=low
 
   * Speed up viewer; add plot search
 
- -- Parker Lab Software <parkerlab-software@umich.edu>  Fri, 18 Aug 2018 09:30:00 -0500
+ -- Parker Lab Software <parkerlab-software@umich.edu>  Fri, 18 Aug 2017 09:30:00 -0500
 
 ataqv (0.9.4-1) unstable; urgency=low
 
   * Fixes for Mac, newer HTSlib.
 
- -- Parker Lab Software <parkerlab-software@umich.edu>  Fri, 28 Jul 2018 16:30:00 -0500
+ -- Parker Lab Software <parkerlab-software@umich.edu>  Fri, 28 Jul 2017 16:30:00 -0500
 
 ataqv (0.9.3-1) unstable; urgency=low
 

diff --git a/docs/demo/css/ataqv.css b/docs/demo/css/ataqv.css
@@ -46,7 +46,7 @@ body {
     position: relative;
 }
 
-button {
+button, a.dt-button {
     font-size: 0.9em;
     outline: none;
     border-radius: 4px;
@@ -58,18 +58,18 @@ button {
     box-shadow: 1px 2px 4px 0px rgba(0, 0, 0, 0.25);
 }
 
-button:active {
+button:active, a.dt-button:active {
     background: #05a;
     border-color: #05a;
     box-shadow: none;
 }
 
-button:focus {
+button:focus, a.dt-button:active {
     outline: none;
 }
 
-button:hover {
-
+button:hover, a.dt-button:hover, a.dt-button:hover:not(.disabled) {
+    background: #06c;
 }
 
 a {
@@ -458,6 +458,10 @@ table.dataTable thead th.sorting_desc::after {
     min-width: 100em;
 }
 
+.for-export {
+    display: none;
+}
+
 /* end tables */
 
 /* tabs */

diff --git a/docs/demo/css/datatables.buttons.min.css b/docs/demo/css/datatables.buttons.min.css
diff --git a/docs/demo/data/SRR891268___1.json.gz b/docs/demo/data/SRR891268___1.json.gz
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diff --git a/docs/demo/data/SRR891280___1.json.gz b/docs/demo/data/SRR891280___1.json.gz
diff --git a/docs/demo/data/SRS438193_SRR891268_1.json.gz b/docs/demo/data/SRS438193_SRR891268_1.json.gz
diff --git a/docs/demo/data/SRS438194_SRR891269_1.json.gz b/docs/demo/data/SRS438194_SRR891269_1.json.gz
diff --git a/docs/demo/data/SRS438195_SRR891270_1.json.gz b/docs/demo/data/SRS438195_SRR891270_1.json.gz
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diff --git a/docs/demo/data/SRS438198_SRR891273_1.json.gz b/docs/demo/data/SRS438198_SRR891273_1.json.gz
diff --git a/docs/demo/data/SRS438199_SRR891274_1.json.gz b/docs/demo/data/SRS438199_SRR891274_1.json.gz
diff --git a/docs/demo/data/SRS438200_SRR891275_1.json.gz b/docs/demo/data/SRS438200_SRR891275_1.json.gz
diff --git a/docs/demo/data/SRS438201_SRR891276_1.json.gz b/docs/demo/data/SRS438201_SRR891276_1.json.gz
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diff --git a/docs/demo/data/SRS438203_SRR891278_1.json.gz b/docs/demo/data/SRS438203_SRR891278_1.json.gz
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diff --git a/docs/demo/data/SRS438205_SRR891280_1.json.gz b/docs/demo/data/SRS438205_SRR891280_1.json.gz