Started running multi-bacterial linkages

Started the code-run for the multi-bacterial linkage. Using sha:

17ec9386d7cb5f5387d553ac520c431b853e7c3b

I ran the command:

python AnalysisCode.py --processing-file BacterialData/BacterialProcessing.yaml --link

This should download, unzip, align and link all of the following genomes:

Acinetobacter_baumannii
Actinobacillus_pleuropneumoniae
Bacillus_anthracis
Bacillus_cereus
Bacillus_subtilis
Bacillus_thuringiensis
Bifidobacterium_longum
Borrelia_burgdorferi
Brucella_abortus
Brucella_melitensis
Buchnera_aphidicola
Burkholderia_mallei
Burkholderia_pseudomallei
Campylobacter_jejuni
Chlamydia_trachomatis
Clostridium_botulinum
Clostridium_difficile
Clostridium_perfringens
Coxiella_burnetii
Enterococcus_faecalis
Enterococcus_faecium
Escherichia_coli
Francisella_tularensis
Haemophilus_influenzae
Helicobacter_pylori
Lactobacillus_crispatus
Lactobacillus_iners
Lactobacillus_jensenii
Lactobacillus_reuteri
Listeria_monocytogenes
Mycobacterium_tuberculosis
Neisseria_gonorrhoeae
Neisseria_gonorrhoeaes
Prochlorococcus_marinus
Pseudomonas_aeruginosa
Pseudomonas_syringae
Rhizobium_etli
Rhodopseudomonas_palustris
Salmonella_enterica
Staphylococcus_aureus
Staphylococcus_epidermidis
Streptococcus_agalactiae
Streptococcus_pneumoniae
Streptococcus_pyogenes
Streptococcus_suis
Sulfolobus_islandicus
Ureaplasma_urealyticum
Vibrio_cholerae
Vibrio_choleraes
Vibrio_parahaemolyticus
Wolbachia_endosymbiont
Yersinia_pestis

Should take a few days to finish ... or perhaps MUCH longer.