Make E. coli Core map with ModelSEED IDs

[hgscott]

I used my conversion code and I had the same few metabolites (as in the central metabolism map) that didn't find a ModelSEED ID name:

• icit
• g6p
• f6p
• nh4
• fdp
• q8
• q8h2
• r5p

So I will be going through manually and updating names.

[hgscott]

These were the IDs I ended up using:	BiGG	ModelSEED	Why couldn't it convert?
icit	cpd00260	D-threo-isocitric acid is also called icit in BiGG
g6p	cpd00079	cpd26836 is also D-glucose-6-phosphate
f6p	cpd00072	beta-D-Fructose-6-phosphate has the same BiGG ID
nh4	cpd00013	cpd00013 (NH3) and cpd19013 (NH4+) have the same aliases... Still not sure I picked the right one.
fdp	cpd00290	D-... and beta-D-... have the same BiGG ID
q8	cpd15560	q8 is given as an aliases for both ubiquinone-8 and ubiquinol-8
q8h2	cpd15561	q8h2 is given as an aliases for both ubiquinone-8 and ubiquinol-8
r5p	cpd00101	alpha-... gets the same BiGG alias

To update the IDs I cntrl+f'ed the map file for the BiGG ID and updated it the ModelSEED.

[hgscott]

I made a core map, it is saved in e_coli/core, I have a file that includes all the metabolite labels, and one without. With the labels it looks like this: