From 98cf1bf25836f9a4cb4f47d4852fb04a25082328 Mon Sep 17 00:00:00 2001 From: Aidan Delaney Date: Mon, 20 Apr 2015 20:17:27 +0100 Subject: [PATCH 1/4] Updated version of gubbins package in install-userspace.sh --- install-userspace.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/install-userspace.sh b/install-userspace.sh index 9aa2205a..37767221 100755 --- a/install-userspace.sh +++ b/install-userspace.sh @@ -13,7 +13,7 @@ # py_pkgs=( "biopython" "dendropy" ) -deb_urls=( "http://uk.archive.ubuntu.com/ubuntu/pool/universe/r/raxml/raxml_7.2.8-2_amd64.deb" "https://launchpad.net/~ap13/+archive/ubuntu/gubbins/+files/fastml2_2.3~trusty1_amd64.deb" "https://launchpad.net/~ap13/+archive/ubuntu/gubbins/+files/gubbins_1.1.1~trusty1_amd64.deb" ) +deb_urls=( "http://uk.archive.ubuntu.com/ubuntu/pool/universe/r/raxml/raxml_7.2.8-2_amd64.deb" "https://launchpad.net/~ap13/+archive/ubuntu/gubbins/+files/fastml2_2.3~trusty1_amd64.deb" "https://launchpad.net/~ap13/+archive/ubuntu/gubbins/+files/gubbins_1.1.3~trusty1_amd64.deb" ) function check_platform { # Ubuntu 14.04 From 17c49241b75f564a0051b841178e2bd92e2c079c Mon Sep 17 00:00:00 2001 From: Aidan Delaney Date: Mon, 20 Apr 2015 20:19:35 +0100 Subject: [PATCH 2/4] This time with valid URL for updated gubbins package. --- install-userspace.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/install-userspace.sh b/install-userspace.sh index 37767221..8178bf1b 100755 --- a/install-userspace.sh +++ b/install-userspace.sh @@ -13,7 +13,7 @@ # py_pkgs=( "biopython" "dendropy" ) -deb_urls=( "http://uk.archive.ubuntu.com/ubuntu/pool/universe/r/raxml/raxml_7.2.8-2_amd64.deb" "https://launchpad.net/~ap13/+archive/ubuntu/gubbins/+files/fastml2_2.3~trusty1_amd64.deb" "https://launchpad.net/~ap13/+archive/ubuntu/gubbins/+files/gubbins_1.1.3~trusty1_amd64.deb" ) +deb_urls=( "http://uk.archive.ubuntu.com/ubuntu/pool/universe/r/raxml/raxml_7.2.8-2_amd64.deb" "https://launchpad.net/~ap13/+archive/ubuntu/gubbins/+files/fastml2_2.3~trusty1_amd64.deb" "https://launchpad.net/~ap13/+archive/ubuntu/gubbins/+files/gubbins_1.3.3~trusty1_amd64.deb" ) function check_platform { # Ubuntu 14.04 From a1213633b1699d8182de76f8cba7e439e3a01ec8 Mon Sep 17 00:00:00 2001 From: Aidan Delaney Date: Mon, 20 Apr 2015 20:24:42 +0100 Subject: [PATCH 3/4] Updated documentation to fix Issue #130 - documentation should make it clear to run autoreconf before configure. --- INSTALL | 1 + 1 file changed, 1 insertion(+) diff --git a/INSTALL b/INSTALL index 28b77a90..98dc0aff 100644 --- a/INSTALL +++ b/INSTALL @@ -146,6 +146,7 @@ If you do not have permission to install the software as root and instead want t $ wget https://bootstrap.pypa.io/ez_setup.py -O - | python - --user $ ~/.local/bin/easy_install -U --user biopython $ ~/.local/bin/easy_install -U --user dendropy +$ autoreconf -i $ ./configure --prefix=~/.local $ make $ make install From c9276d1f80baf635ccea7ade05b78e1e92c2e823 Mon Sep 17 00:00:00 2001 From: andrewjpage Date: Mon, 18 May 2015 15:20:20 +0100 Subject: [PATCH 4/4] install md --- INSTALL => INSTALL.md | 0 1 file changed, 0 insertions(+), 0 deletions(-) rename INSTALL => INSTALL.md (100%) diff --git a/INSTALL b/INSTALL.md similarity index 100% rename from INSTALL rename to INSTALL.md