Segfault while downloading with pacman

Question

Hello y'all,
The headline pretty much says it. I tried writing up a PKGBUILD for CCP4 which involved sourcing an install script (which changed some environment variables, nothing that should have an effect on pacman usage after restart IMHO) and screwing around with make and (accidentally) sudo make. After that, I realized that I couldn't download anything using pacman. Refreshing the master package list showed me the
core 0.0 K 0.0 K/s 00:00:00 [---] 0%
line for a few seconds, followed by said segfault. The same happens when pacman tries downloading a package without refreshing the master package list.
Neither I nor the script changed anything in /etc/pacman*, though I had several problems with libraries while writing the CCP4 PKGBUILD. All other pacman functions that do not involve downloading work fine. PKGBUILD (in case anyone is interested) is attached.
Does anyone have an idea how I could solve this (apart from reinstalling)?
PKGBUILD:
#CAUTION: NOT WORKING YET. Also, licenses not yet included.
# Contributor: Patrice Peterson <[email protected]>
pkgname=ccp4
pkgver=6.1.1
pkgrel=1
pkgdesc="Suite for crystallographic structure solution. Includes Phaser + CCTBX"
arch=(i686 x86_64)
url="http://www.ccp4.ac.uk/"
license=('custom')
depends=('tcl' 'tk' 'blt' 'graphviz' 'fasta' 'clustalw' 'python>=2.4.2')
makedepends=()
optdepends=()
provides=()
conflicts=()
replaces=()
backup=()
options=(zipman)
install=
phaser_ver=2.1.4
source=(ftp://ftp.ccp4.ac.uk/ccp4/${pkgver}/ccp4-${pkgver}-core-src.tar.gz
ftp://ftp.ccp4.ac.uk/ccp4/${pkgver}/phaser-${phaser_ver}-cctbx-src.tar.gz)
md5sums=('aeb3eed9f789b3a60894b2d9be8ed43a'
'eb6371d4a7339fe81e71a9170fea614d')
build() {
cd "$srcdir/$pkgname-$pkgver"
# CCP4 comes with install scripts for several shells (csh natively)
# Keep ccp4.setup-bash unchanged as a reference, use ccp4.setup as setup script
cp include/ccp4.setup-bash include/ccp4.setup
case $SHELL in
/bin/bash)
sed "s/\/xtal/\$\{srcdir\}/" -i include/ccp4.setup
sed "s/\/tmp\/\$USER/\/tmp\/ccp4\-\$USER/" -i include/ccp4.setup
sed "s/\/usr\/local\/bin/\/usr\/bin/" -i include/ccp4.setup
echo "This shell isn't supported yet." # Placeholder
exit 1
esac
source include/ccp4.setup
./configure --prefix=/usr --with-shared-libs linux
make || return 1
make DESTDIR="${pkgdir}/" install
# vim:set ts=2 sw=2 et:

Answer 1

On this way it is not easy to offer exact diagnostic but it is logic that by download and data transfer HDD runs constantly and you will hear this HDD activity. In idle state HDD activity is on minimum level and you will not hear it.
I cannot say for sure if HDD is defective or not but fact is when you will hear loud and clicking noise it can be sign that HDD can be at the end of its life. Be careful about all this and back up all your important data.