From e783deb71ee8ff75aa303cb585cf57665114748c Mon Sep 17 00:00:00 2001
From: Spencer Bliven <spencer.bliven@psi.ch>
Date: Wed, 30 Nov 2022 17:01:09 +0100
Subject: [PATCH] Create ctffind4 build script & install 4.1.14

---
 EM/ctffind4/README         |  8 ++++++++
 EM/ctffind4/build          | 36 ++++++++++++++++++++++++++++++++++++
 EM/ctffind4/files/variants |  2 ++
 EM/ctffind4/modulefile     | 10 ++++++++++
 4 files changed, 56 insertions(+)
 create mode 100644 EM/ctffind4/README
 create mode 100755 EM/ctffind4/build
 create mode 100644 EM/ctffind4/files/variants
 create mode 100644 EM/ctffind4/modulefile

diff --git a/EM/ctffind4/README b/EM/ctffind4/README
new file mode 100644
index 0000000..8044d39
--- /dev/null
+++ b/EM/ctffind4/README
@@ -0,0 +1,8 @@
+# ctffind4
+
+## Installation
+
+    ./build
+
+Installs the pre-build binaries.
+
diff --git a/EM/ctffind4/build b/EM/ctffind4/build
new file mode 100755
index 0000000..ad8ea2a
--- /dev/null
+++ b/EM/ctffind4/build
@@ -0,0 +1,36 @@
+#!/usr/bin/env modbuild
+
+# Binary distribution with manual installation. See README.md
+
+pbuild::add_to_group 'EM'
+
+pbuild::set_download_url "https://grigoriefflab.umassmed.edu/system/tdf?path=ctffind-${V_PKG}-linux64.tar.gz&file=1&type=node&id=26"
+
+#pbuild::prep() {
+#    local filename="ctffind-${V_PKG}-linux64.tar.gz"
+#    local dst="$PMODULES_DISTFILESDIR/${filename}"
+#    if [ -f "$dst" ]; then
+#        echo "Found cached $dst" >&2
+#    else
+#        ${curl:-curl} \
+#            --location \
+#            --fail \
+#            --output "$dst" \
+#            "https://grigoriefflab.umassmed.edu/system/tdf?path=${filename}&file=1&type=node&id=26"
+#    fi
+#}
+#
+
+pbuild::configure() {
+    :
+}
+
+pbuild::compile() {
+    :
+}
+
+pbuild::install() {
+    mkdir -p "$PREFIX/bin"
+    mv "$SRC_DIR/"* "$PREFIX/bin"
+}
+
diff --git a/EM/ctffind4/files/variants b/EM/ctffind4/files/variants
new file mode 100644
index 0000000..1f3614f
--- /dev/null
+++ b/EM/ctffind4/files/variants
@@ -0,0 +1,2 @@
+ctffind4/4.1.8	stable
+ctffind4/4.1.14	stable
diff --git a/EM/ctffind4/modulefile b/EM/ctffind4/modulefile
new file mode 100644
index 0000000..6098b06
--- /dev/null
+++ b/EM/ctffind4/modulefile
@@ -0,0 +1,10 @@
+#%Module1.0
+
+module-whatis           "CTF estimation from electron micrographs"
+module-url              "https://grigoriefflab.umassmed.edu/ctffind4"
+module-license          "The Janelia Research Campus Software License 1.2 http://license.janelia.org/license/janelia_license_1_2.html"
+module-maintainer       "Spencer Bliven <spencer.bliven@psi.ch>"
+
+module-help     "
+Mindell, JA, Grigorieff N.  2003.  Accurate determination of local defocus and specimen tilt in electron microscopy. J Struct Biol. 142:334-47.
+"