Revert commits 4ddda29c and 12f78739 to avoid conflicts in subsequent merge of develop -> master.

modules/bindings/pymod/clustalw.py

modules/bindings/tests/test_clustalw.py

modules/bindings/tests/testfiles/seq1.fasta

modules/bindings/tests/testfiles/seq1_seq2_aln.fasta

...dings/tests/testfiles/seq1_seq2_aln_options_changed.fasta

modules/bindings/tests/testfiles/seq2.fasta

modules/io/src/mol/pdb_writer.cc

modules/io/tests/test_io_pdb.cc

modules/seq/alg/pymod/renumber.py

modules/seq/alg/tests/CMakeLists.txt

modules/seq/alg/tests/test_renumber.py

modules/seq/alg/tests/testfiles/peptide.fasta

modules/seq/alg/tests/testfiles/peptide_del_1_2.pdb

modules/seq/alg/tests/testfiles/peptide_del_4.pdb

modules/seq/alg/tests/testfiles/peptide_mutation_3.pdb

modules/seq/alg/tests/testfiles/peptide_original.pdb

modules/seq/alg/tests/testfiles/peptide_plus_5.pdb

modules/seq/alg/tests/testfiles/peptide_random.pdb