Unix tools:
Unix tutorial (local), VIM tutorial (book_pdf), xmgrace, gnuplot (tutorial_pdf), latex (CTAN, List_of_symbols_pdf), re
Linux distributions:
Debian, Kubuntu, KNOPPIX, Nimblex, tomsrbt
Fortran:
Compilers (g95, gfortran, intel_ifort), courses at Liverpool and tutorial (local_pdf)
Nice helpers:
bash scripting (local_pdf_1, local_pdf_2), perl (CPAN), python (HTTLCS)
Useful on-line courses:
Introduction to Materials Science (MIT), Atomistic Computer Modeling (MIT), Modeling from the nanoscale to the macroscale (NCSU)
Electronic Structure codes:
espresso, pwscf, wannier90, want, siesta, CPMD, Wien2K