Update to 2.11.6-1

* Upstream changelog:
  * By default, the port listener is disabled on IGV startup. Change the setting in View > Preferences > Advanced.  Note that to use oAuth for Google or Amazon AWS access you must enable the port.
  * Update to use Log4j version 2.16.0. Note however, we do not believe any version of IGV is impacted by the vulnerability of earlier Log4j versions because IGV is a desktop application and does not expose any input forms to users over the web, and it does not log any user input.
* Main download no longer bundles icon, so explicitly download from GitHub repository
* Remove commented png that was unused
* Fix whitespace indentations for consistency

2 files changed, 16 insertions, 14 deletions

diff --git a/.SRCINFO b/.SRCINFO
index 611d6148b04c..ec37bc47dcdd 100644
--- a/.SRCINFO
+++ b/.SRCINFO
@@ -1,6 +1,6 @@
 pkgbase = igv
 	pkgdesc = High-performance visualization tool for interactive exploration of large, integrated genomic datasets. From Broad Institute.
-	pkgver = 2.11.4
+	pkgver = 2.11.6
 	pkgrel = 1
 	url = http://www.broadinstitute.org/software/igv/home
 	arch = any
@@ -8,17 +8,19 @@ pkgbase = igv
 	depends = jre11-openjdk
 	depends = archlinux-java-run
 	depends = sh
-	source = https://data.broadinstitute.org/igv/projects/downloads/2.11/IGV_Linux_2.11.4_WithJava.zip
+	source = https://data.broadinstitute.org/igv/projects/downloads/2.11/IGV_Linux_2.11.6_WithJava.zip
 	source = igv.sh
 	source = igv_hidpi.sh
 	source = igv.desktop
 	source = igv_hidpi.desktop
 	source = igv-license-2020.txt::https://raw.githubusercontent.com/igvteam/igv/master/license.txt
-	sha512sums = 475f6525b86febff3b5b008f4c1cf03bef8fb32c693e7d63dbb861e0810b2f4a8ac05780a9ce72adbbe7e919ce821904ee7d37b4d02b425814dd565be677d148
+	source = https://github.com/igvteam/igv/blob/v2.11.6/test/web/IGV_64.png
+	sha512sums = c858fb87ff3cfb38fbbc11237cb8b2b5bc02c350115cd29bf6a02ba422fecc34e00bef3ad4e4f0640429836cd0e9b88b3a0519e81b1b756a61d11eadedf579e1
 	sha512sums = 70de493d5188d6eedbd0bf7c74d41ce4829efab75e3a79b56f998326c209d0184f5d3624d6b85d01ad93f0462e785c314322ef4a9260ead6d747f1791ecbe649
 	sha512sums = 60c9c8c6f66259a4edafd1d58d1f1ebcda4450f7620d4c0fc987d5875c2fd531bc2a3159fcdb77975bf07002036e3544f4d301a31d1085ab24d576eea1f8adcb
 	sha512sums = c6bd4fc8bb7e43ee0fe9a4709e716d015c678bdd8bcb897876c267ec48441e2383aebb26b80457d2238f79546537af3409aa698544dc0043ff2c921f18126662
 	sha512sums = 0d52cbd6adc2bf36f8b80acdb6d72b30d52e920b301e7af75ddee8d942c9f3467f7aa98129984ee269c6aaaacc703fb054ba2917e0d7dbce5620050623383e5b
 	sha512sums = 6bbe15b1d5aee6754938fd8918b3679f7365dceb2a071969dd0abc85e6e2aedca24c8f7ed886fa23b7b5b547cfd1a303e6ba48a59073ef103dfddabd97d6a6a8
+	sha512sums = 2d15b3da3c9fab08878a22d88ae0321578080546989d3c358e99ea3801e0eeeb0ef2a6b24d06a232967a52b817932cf046316de7bc9a168aef4a179feb45b882
 
 pkgname = igv
diff --git a/PKGBUILD b/PKGBUILD
index 67fb0e4a37e5..a199f7053807 100644
--- a/PKGBUILD
+++ b/PKGBUILD
@@ -4,7 +4,7 @@
 # Co-maintainer: Rhinoceros <https://aur.archlinux.org/account/rhinoceros>
 
 pkgname=igv
-pkgver=2.11.4
+pkgver=2.11.6
 minor_pkgver=$(<<<$pkgver sed -E 's/^([0-9]+\.[0-9]+)\..*/\1/')
 _pkgver=${pkgver//_/-}   # currently not needed
 pkgrel=1
@@ -15,19 +15,19 @@ license=('MIT')
 depends=('jre11-openjdk' 'archlinux-java-run' 'sh')
 #"igv-$pkgver.tar.gz::https://github.com/igvteam/igv/archive/v$pkgver.tar.gz"
 source=("https://data.broadinstitute.org/igv/projects/downloads/${minor_pkgver}/IGV_Linux_${pkgver}_WithJava.zip"
-	#"http://www.broadinstitute.org/software/igv/sites/cancerinformatics.org.igv/files/images/tools.png"
-	"$pkgname.sh"
-	"igv_hidpi.sh"
-	"$pkgname.desktop"
-	"igv_hidpi.desktop"
-	"${pkgname}-license-2020.txt::https://raw.githubusercontent.com/igvteam/igv/master/license.txt")
-sha512sums=('475f6525b86febff3b5b008f4c1cf03bef8fb32c693e7d63dbb861e0810b2f4a8ac05780a9ce72adbbe7e919ce821904ee7d37b4d02b425814dd565be677d148'
-            #'e71a0dc70c717b3db00268632500b5723b8cddb1ecfbd8ce48b77ffad59bf93a8d275cc5ebd18b9eb1025200438ac55ec348def343b1b5f72a2c982b5dc4cc90'
+        "$pkgname.sh"
+        "igv_hidpi.sh"
+        "$pkgname.desktop"
+        "igv_hidpi.desktop"
+        "${pkgname}-license-2020.txt::https://raw.githubusercontent.com/igvteam/igv/master/license.txt"
+        "https://github.com/igvteam/igv/blob/v${pkgver}/test/web/IGV_64.png")
+sha512sums=('c858fb87ff3cfb38fbbc11237cb8b2b5bc02c350115cd29bf6a02ba422fecc34e00bef3ad4e4f0640429836cd0e9b88b3a0519e81b1b756a61d11eadedf579e1'
             '70de493d5188d6eedbd0bf7c74d41ce4829efab75e3a79b56f998326c209d0184f5d3624d6b85d01ad93f0462e785c314322ef4a9260ead6d747f1791ecbe649'
             '60c9c8c6f66259a4edafd1d58d1f1ebcda4450f7620d4c0fc987d5875c2fd531bc2a3159fcdb77975bf07002036e3544f4d301a31d1085ab24d576eea1f8adcb'
             'c6bd4fc8bb7e43ee0fe9a4709e716d015c678bdd8bcb897876c267ec48441e2383aebb26b80457d2238f79546537af3409aa698544dc0043ff2c921f18126662'
             '0d52cbd6adc2bf36f8b80acdb6d72b30d52e920b301e7af75ddee8d942c9f3467f7aa98129984ee269c6aaaacc703fb054ba2917e0d7dbce5620050623383e5b'
-            '6bbe15b1d5aee6754938fd8918b3679f7365dceb2a071969dd0abc85e6e2aedca24c8f7ed886fa23b7b5b547cfd1a303e6ba48a59073ef103dfddabd97d6a6a8')
+            '6bbe15b1d5aee6754938fd8918b3679f7365dceb2a071969dd0abc85e6e2aedca24c8f7ed886fa23b7b5b547cfd1a303e6ba48a59073ef103dfddabd97d6a6a8'
+            '2d15b3da3c9fab08878a22d88ae0321578080546989d3c358e99ea3801e0eeeb0ef2a6b24d06a232967a52b817932cf046316de7bc9a168aef4a179feb45b882')
 
 package() {
   install -Dm755 $pkgname.sh "$pkgdir"/usr/bin/$pkgname
@@ -35,8 +35,8 @@ package() {
   install -Dm644 $pkgname.desktop "$pkgdir"/usr/share/applications/$pkgname.desktop
   install -Dm644 "$pkgname"_hidpi.desktop "$pkgdir"/usr/share/applications/"$pkgname"_hidpi.desktop
   install -Dm644 ${pkgname}-license-2020.txt "${pkgdir}/usr/share/licenses/${pkgname}/license.txt"
-  cd IGV_Linux_${_pkgver}
   install -Dm644 IGV_64.png "$pkgdir"/usr/share/pixmaps/$pkgname.png
+  cd IGV_Linux_${_pkgver}
   install -Dm644 igv.args "$pkgdir"/usr/share/java/$pkgname/igv.args
   install -Dm644 lib/* -t "$pkgdir"/usr/share/java/$pkgname/lib/
 }