FullThermoPkg exampleΒΆ
[6]:
# define the environment path
import os
local_cobrakbase_path = os.path.join('C:', 'Users', 'Andrew Freiburger','Documents','Argonne','cobrakbase')
os.environ["HOME"] = local_cobrakbase_path
# import the models
import cobrakbase
token = 'WE6CHYRDTJSGOHFIDGPE7WYFT6PRPXJL'
kbase_api = cobrakbase.KBaseAPI(token)
#Put the path to ModelSEEDpy on your machine here
# import sys
# sys.path.append("/Users/chenry/code/ModelSEEDpy")
#import modelseedpy.fbapkg
from modelseedpy import KBaseMediaPkg, FullThermoPkg
from modelseedpy import FBAHelper
WARNING:cobrakbase.core.kbasefba.fbamodel_builder:unable to add sink for [cpd15302_c0]: not found
[10]:
model = kbase_api.get_from_ws("E_iAH991V2",40576)
model.solver = 'glpk'
kmp = KBaseMediaPkg(model)
kmp.build_package(None)
FBAHelper.set_objective_from_target_reaction(model,"bio1")
sol=model.optimize()
model.summary()
WARNING:cobrakbase.core.kbasefba.fbamodel_builder:unable to add sink for [cpd15302_c0]: not found
[10]:
Objective
1.0 bio1 = 26.513845730068834
Uptake
| Metabolite | Reaction | Flux | C-Number | C-Flux |
|---|---|---|---|---|
| arabttr_e0 | EX_arabttr_e0 | 8.764 | 0 | 0.00% |
| cpd00001_e0 | EX_cpd00001_e0 | 100 | 0 | 0.00% |
| cpd00007_e0 | EX_cpd00007_e0 | 100 | 0 | 0.00% |
| cpd00009_e0 | EX_cpd00009_e0 | 44.11 | 0 | 0.00% |
| cpd00028_e0 | EX_cpd00028_e0 | 0.1238 | 34 | 0.04% |
| cpd00030_e0 | EX_cpd00030_e0 | 0.1238 | 0 | 0.00% |
| cpd00034_e0 | EX_cpd00034_e0 | 0.1238 | 0 | 0.00% |
| cpd00039_e0 | EX_cpd00039_e0 | 8.844 | 6 | 0.46% |
| cpd00047_e0 | EX_cpd00047_e0 | 30.99 | 1 | 0.27% |
| cpd00063_e0 | EX_cpd00063_e0 | 0.1238 | 0 | 0.00% |
| cpd00065_e0 | EX_cpd00065_e0 | 100 | 11 | 9.64% |
| cpd00076_e0 | EX_cpd00076_e0 | 100 | 12 | 10.51% |
| cpd00084_e0 | EX_cpd00084_e0 | 2.607 | 3 | 0.07% |
| cpd00104_e0 | EX_cpd00104_e0 | 0.1238 | 10 | 0.01% |
| cpd00106_e0 | EX_cpd00106_e0 | 52.12 | 4 | 1.83% |
| cpd00108_e0 | EX_cpd00108_e0 | 1.302 | 6 | 0.07% |
| cpd00119_e0 | EX_cpd00119_e0 | 100 | 6 | 5.26% |
| cpd00122_e0 | EX_cpd00122_e0 | 4.904 | 8 | 0.34% |
| cpd00149_e0 | EX_cpd00149_e0 | 0.1238 | 0 | 0.00% |
| cpd00159_e0 | EX_cpd00159_e0 | 100 | 3 | 2.63% |
| cpd00166_e0 | EX_cpd00166_e0 | 0.1238 | 72 | 0.08% |
| cpd00179_e0 | EX_cpd00179_e0 | 82.65 | 12 | 8.69% |
| cpd00182_e0 | EX_cpd00182_e0 | 100 | 10 | 8.76% |
| cpd00205_e0 | EX_cpd00205_e0 | 0.1238 | 0 | 0.00% |
| cpd00218_e0 | EX_cpd00218_e0 | 0.2475 | 6 | 0.01% |
| cpd00220_e0 | EX_cpd00220_e0 | 0.2475 | 17 | 0.04% |
| cpd00221_e0 | EX_cpd00221_e0 | 100 | 3 | 2.63% |
| cpd00224_e0 | EX_cpd00224_e0 | 100 | 5 | 4.38% |
| cpd00254_e0 | EX_cpd00254_e0 | 0.1238 | 0 | 0.00% |
| cpd00263_e0 | EX_cpd00263_e0 | 0.1238 | 8 | 0.01% |
| cpd00280_e0 | EX_cpd00280_e0 | 2.604 | 6 | 0.14% |
| cpd00305_e0 | EX_cpd00305_e0 | 0.1238 | 12 | 0.01% |
| cpd00311_e0 | EX_cpd00311_e0 | 6.167 | 10 | 0.54% |
| cpd00322_e0 | EX_cpd00322_e0 | 11.44 | 6 | 0.60% |
| cpd00363_e0 | EX_cpd00363_e0 | 100 | 2 | 1.75% |
| cpd00367_e0 | EX_cpd00367_e0 | 100 | 9 | 7.88% |
| cpd00393_e0 | EX_cpd00393_e0 | 0.3713 | 19 | 0.06% |
| cpd00396_e0 | EX_cpd00396_e0 | 1.302 | 6 | 0.07% |
| cpd00644_e0 | EX_cpd00644_e0 | 0.2475 | 9 | 0.02% |
| cpd00654_e0 | EX_cpd00654_e0 | 95.49 | 9 | 7.53% |
| cpd00971_e0 | EX_cpd00971_e0 | 0.1238 | 0 | 0.00% |
| cpd10515_e0 | EX_cpd10515_e0 | 0.2475 | 0 | 0.00% |
| cpd11591_e0 | EX_cpd11591_e0 | 97.79 | 7 | 6.00% |
| cpd11640_e0 | EX_cpd11640_e0 | 100 | 0 | 0.00% |
| cpd15500_e0 | EX_cpd15500_e0 | 0.1238 | 51 | 0.06% |
| cpd15551_e0 | EX_cpd15551_e0 | 5.712 | 7 | 0.35% |
| cpd15605_e0 | EX_cpd15605_e0 | 100 | 11 | 9.64% |
| cpd15606_e0 | EX_cpd15606_e0 | 100 | 11 | 9.64% |
| cps_bt_e0 | EX_cps_bt_e0 | 0.1238 | 0 | 0.00% |
| galam_e0 | EX_galam_e0 | 100 | 0 | 0.00% |
| glyasn_e0 | EX_glyasn_e0 | 100 | 0 | 0.00% |
| hspg_degr_11_e0 | EX_hspg_degr_11_e0 | 100 | 0 | 0.00% |
| hspg_degr_6_e0 | EX_hspg_degr_6_e0 | 100 | 0 | 0.00% |
| leuleu_e0 | EX_leuleu_e0 | 57.79 | 0 | 0.00% |
| lps_bt_e0 | EX_lps_bt_e0 | 0.5157 | 0 | 0.00% |
| pe_cer1_bt_e0 | EX_pe_cer1_bt_e0 | 0.1238 | 0 | 0.00% |
| pect_e0 | EX_pect_e0 | 0.5128 | 0 | 0.00% |
| phearg_e0 | EX_phearg_e0 | 100 | 0 | 0.00% |
| sphmyln_bt_e0 | EX_sphmyln_bt_e0 | 0.1238 | 0 | 0.00% |
Secretion
| Metabolite | Reaction | Flux | C-Number | C-Flux |
|---|---|---|---|---|
| arabinan101_e0 | EX_arabinan101_e0 | -1.302 | 0 | 0.00% |
| argarg_e0 | EX_argarg_e0 | -46.12 | 0 | 0.00% |
| cpd00011_e0 | EX_cpd00011_e0 | -100 | 1 | 0.73% |
| cpd00013_e0 | EX_cpd00013_e0 | -100 | 0 | 0.00% |
| cpd00020_e0 | EX_cpd00020_e0 | -100 | 3 | 2.20% |
| cpd00027_e0 | EX_cpd00027_e0 | -100 | 6 | 4.41% |
| cpd00029_e0 | EX_cpd00029_e0 | -100 | 2 | 1.47% |
| cpd00033_e0 | EX_cpd00033_e0 | -100 | 2 | 1.47% |
| cpd00035_e0 | EX_cpd00035_e0 | -100 | 3 | 2.20% |
| cpd00036_e0 | EX_cpd00036_e0 | -100 | 4 | 2.94% |
| cpd00041_e0 | EX_cpd00041_e0 | -100 | 4 | 2.94% |
| cpd00053_e0 | EX_cpd00053_e0 | -100 | 5 | 3.67% |
| cpd00054_e0 | EX_cpd00054_e0 | -100 | 3 | 2.20% |
| cpd00060_e0 | EX_cpd00060_e0 | -93.7 | 5 | 3.44% |
| cpd00066_e0 | EX_cpd00066_e0 | -95.21 | 9 | 6.30% |
| cpd00067_e0 | EX_cpd00067_e0 | -100 | 0 | 0.00% |
| cpd00069_e0 | EX_cpd00069_e0 | -96.44 | 9 | 6.38% |
| cpd00082_e0 | EX_cpd00082_e0 | -100 | 6 | 4.41% |
| cpd00092_e0 | EX_cpd00092_e0 | -94.25 | 4 | 2.77% |
| cpd00105_e0 | EX_cpd00105_e0 | -100 | 5 | 3.67% |
| cpd00107_e0 | EX_cpd00107_e0 | -100 | 6 | 4.41% |
| cpd00116_e0 | EX_cpd00116_e0 | -100 | 1 | 0.73% |
| cpd00117_e0 | EX_cpd00117_e0 | -100 | 3 | 2.20% |
| cpd00132_e0 | EX_cpd00132_e0 | -93.78 | 4 | 2.76% |
| cpd00141_e0 | EX_cpd00141_e0 | -55.02 | 3 | 1.21% |
| cpd00156_e0 | EX_cpd00156_e0 | -13.77 | 5 | 0.51% |
| cpd00161_e0 | EX_cpd00161_e0 | -93.46 | 4 | 2.75% |
| cpd00164_e0 | EX_cpd00164_e0 | -100 | 6 | 4.41% |
| cpd00249_e0 | EX_cpd00249_e0 | -92.84 | 9 | 6.14% |
| cpd00276_e0 | EX_cpd00276_e0 | -100 | 6 | 4.41% |
| cpd00430_e0 | EX_cpd00430_e0 | -100 | 8 | 5.88% |
| cpd00438_e0 | EX_cpd00438_e0 | -94.25 | 10 | 6.93% |
| cpd15836_e0 | EX_cpd15836_e0 | -97.54 | 9 | 6.45% |
| hspg_degr_12_e0 | EX_hspg_degr_12_e0 | -100 | 0 | 0.00% |
| indlac_e0 | EX_indlac_e0 | -98.54 | 0 | 0.00% |
| unsdigalur_e0 | EX_unsdigalur_e0 | -100 | 0 | 0.00% |
| cpd11416_c0 | SK_cpd11416_c0 | -26.51 | 0 | 0.00% |
[11]:
ftp = FullThermoPkg(model)
modelseed_db_path = os.path.join('..', '..', '..', 'ModelSEEDDatabase') # /Users/chenry/code/ModelSEEDDatabase/
ftp.build_package({"modelseed_path":modelseed_db_path})
with open('FullThermo.lp', 'w') as out:
out.write(str(model.solver))
sol=model.optimize()
#Next minimize active reactions
model.summary()
12ethd_e0 has no modelseed ID!
12ethd_c0 has no modelseed ID!
2ameph_c0 has no modelseed ID!
pald_c0 has no modelseed ID!
2fuclac_e0 has no modelseed ID!
cpd11493_c0 has modelseed ID cpd11493 but does not have a valid deltaG!
2mbutACP_c0 has no modelseed ID!
2mmal_c0 has no modelseed ID!
2mmale_c0 has no modelseed ID!
e3mmal_c0 has no modelseed ID!
3fuclac_e0 has no modelseed ID!
3hgACPm_c0 has no modelseed ID!
egACPm_c0 has no modelseed ID!
3hpACPm_c0 has no modelseed ID!
epACPm_c0 has no modelseed ID!
cpd11482_c0 has modelseed ID cpd11482 but does not have a valid deltaG!
cpd11475_c0 has modelseed ID cpd11475 but does not have a valid deltaG!
10m3hundecACP_c0 has no modelseed ID!
10mtundec2eACP_c0 has no modelseed ID!
10m3hddcaACP_c0 has no modelseed ID!
10mtddec2eACP_c0 has no modelseed ID!
11m3hddcaACP_c0 has no modelseed ID!
11mtddec2eACP_c0 has no modelseed ID!
cpd11480_c0 has modelseed ID cpd11480 but does not have a valid deltaG!
cpd11469_c0 has modelseed ID cpd11469 but does not have a valid deltaG!
cpd15366_c0 has modelseed ID cpd15366 but does not have a valid deltaG!
cpd15569_c0 has modelseed ID cpd15569 but does not have a valid deltaG!
12m3htridecACP_c0 has no modelseed ID!
12mttritec2eACP_c0 has no modelseed ID!
12m3hmyrsACP_c0 has no modelseed ID!
12mtmrs2eACP_c0 has no modelseed ID!
13m3hmyrsACP_c0 has no modelseed ID!
13mtmrs2eACP_c0 has no modelseed ID!
cpd11484_c0 has modelseed ID cpd11484 but does not have a valid deltaG!
cpd11467_c0 has modelseed ID cpd11467 but does not have a valid deltaG!
cpd15368_c0 has modelseed ID cpd15368 but does not have a valid deltaG!
cpd15570_c0 has modelseed ID cpd15570 but does not have a valid deltaG!
14m3hpentdecACP_c0 has no modelseed ID!
14mtpentdec2eACP_c0 has no modelseed ID!
14m3hpalmACP_c0 has no modelseed ID!
14mtpalm2eACP_c0 has no modelseed ID!
15m3hpalmACP_c0 has no modelseed ID!
15mtpalm2eACP_c0 has no modelseed ID!
cpd11481_c0 has modelseed ID cpd11481 but does not have a valid deltaG!
cpd11477_c0 has modelseed ID cpd11477 but does not have a valid deltaG!
cpd15369_c0 has modelseed ID cpd15369 but does not have a valid deltaG!
cpd15571_c0 has modelseed ID cpd15571 but does not have a valid deltaG!
cpd15371_c0 has modelseed ID cpd15371 but does not have a valid deltaG!
cpd15572_c0 has modelseed ID cpd15572 but does not have a valid deltaG!
cpd15370_c0 has modelseed ID cpd15370 but does not have a valid deltaG!
cpd15568_c0 has modelseed ID cpd15568 but does not have a valid deltaG!
cpd11836_c0 has modelseed ID cpd11836 but does not have a valid deltaG!
cpd11465_c0 has modelseed ID cpd11465 but does not have a valid deltaG!
4m3hpentACP_c0 has no modelseed ID!
4mtpent2eACP_c0 has no modelseed ID!
4m3hhexACP_c0 has no modelseed ID!
4mthex2eACP_c0 has no modelseed ID!
5m3hhexACP_c0 has no modelseed ID!
5mthex2eACP_c0 has no modelseed ID!
cpd11479_c0 has modelseed ID cpd11479 but does not have a valid deltaG!
cpd11473_c0 has modelseed ID cpd11473 but does not have a valid deltaG!
6m3hheptACP_c0 has no modelseed ID!
6mthept2eACP_c0 has no modelseed ID!
6m3hocACP_c0 has no modelseed ID!
6mtoct2eACP_c0 has no modelseed ID!
7m3hocACP_c0 has no modelseed ID!
7mtoct2eACP_c0 has no modelseed ID!
cpd11483_c0 has modelseed ID cpd11483 but does not have a valid deltaG!
cpd11471_c0 has modelseed ID cpd11471 but does not have a valid deltaG!
8m3hdcaACP_c0 has no modelseed ID!
8mtdec2eACP_c0 has no modelseed ID!
8m3hnonACP_c0 has no modelseed ID!
8mtnon2eACP_c0 has no modelseed ID!
9m3hdcaACP_c0 has no modelseed ID!
9mtdec2eACP_c0 has no modelseed ID!
3ogACPm_c0 has no modelseed ID!
3opACPm_c0 has no modelseed ID!
cpd11487_c0 has modelseed ID cpd11487 but does not have a valid deltaG!
10m3oundecACP_c0 has no modelseed ID!
10m3oddcaACP_c0 has no modelseed ID!
11m3oddcaACP_c0 has no modelseed ID!
cpd11489_c0 has modelseed ID cpd11489 but does not have a valid deltaG!
cpd15373_c0 has modelseed ID cpd15373 but does not have a valid deltaG!
12m3otridecACP_c0 has no modelseed ID!
12m3omyrsACP_c0 has no modelseed ID!
13m3omyrsACP_c0 has no modelseed ID!
cpd11491_c0 has modelseed ID cpd11491 but does not have a valid deltaG!
cpd15374_c0 has modelseed ID cpd15374 but does not have a valid deltaG!
14m3opentdecACP_c0 has no modelseed ID!
14m3opalmACP_c0 has no modelseed ID!
15m3opalmACP_c0 has no modelseed ID!
cpd11485_c0 has modelseed ID cpd11485 but does not have a valid deltaG!
cpd15375_c0 has modelseed ID cpd15375 but does not have a valid deltaG!
cpd15377_c0 has modelseed ID cpd15377 but does not have a valid deltaG!
cpd15376_c0 has modelseed ID cpd15376 but does not have a valid deltaG!
cpd11488_c0 has modelseed ID cpd11488 but does not have a valid deltaG!
4m3opentACP_c0 has no modelseed ID!
4m3ohexACP_c0 has no modelseed ID!
5m3ohexACP_c0 has no modelseed ID!
cpd11486_c0 has modelseed ID cpd11486 but does not have a valid deltaG!
6m3oheptACP_c0 has no modelseed ID!
6m3oocACP_c0 has no modelseed ID!
7m3oocACP_c0 has no modelseed ID!
cpd11490_c0 has modelseed ID cpd11490 but does not have a valid deltaG!
8m3odcaACP_c0 has no modelseed ID!
8m3ononACP_c0 has no modelseed ID!
9m3odcaACP_c0 has no modelseed ID!
cpd11492_c0 has modelseed ID cpd11492 but does not have a valid deltaG!
cpd11470_c0 has modelseed ID cpd11470 but does not have a valid deltaG!
10mundecACP_c0 has no modelseed ID!
10mddcaACP_c0 has no modelseed ID!
11mddcaACP_c0 has no modelseed ID!
cpd11474_c0 has modelseed ID cpd11474 but does not have a valid deltaG!
cpd15416_c0 has modelseed ID cpd15416 but does not have a valid deltaG!
12mtridecACP_c0 has no modelseed ID!
12mmyrsACP_c0 has no modelseed ID!
13mmyrsACP_c0 has no modelseed ID!
cpd11468_c0 has modelseed ID cpd11468 but does not have a valid deltaG!
cpd15415_c0 has modelseed ID cpd15415 but does not have a valid deltaG!
cpd11466_c0 has modelseed ID cpd11466 but does not have a valid deltaG!
cpd15294_c0 has modelseed ID cpd15294 but does not have a valid deltaG!
cpd15277_c0 has modelseed ID cpd15277 but does not have a valid deltaG!
cpd15239_c0 has modelseed ID cpd15239 but does not have a valid deltaG!
2mpropACP_c0 has no modelseed ID!
3mbutACP_c0 has no modelseed ID!
4mpentACP_c0 has no modelseed ID!
4mhexACP_c0 has no modelseed ID!
5mhexACP_c0 has no modelseed ID!
cpd11464_c0 has modelseed ID cpd11464 but does not have a valid deltaG!
6mheptACP_c0 has no modelseed ID!
6mocACP_c0 has no modelseed ID!
7mocACP_c0 has no modelseed ID!
cpd11472_c0 has modelseed ID cpd11472 but does not have a valid deltaG!
8mdcaACP_c0 has no modelseed ID!
8mnonACP_c0 has no modelseed ID!
9mdcaACP_c0 has no modelseed ID!
7ocholate_c0 has no modelseed ID!
cpd00971_c0 has modelseed ID cpd00971 but does not have a valid deltaG!
7ocholate_e0 has no modelseed ID!
cpd00971_e0 has modelseed ID cpd00971 but does not have a valid deltaG!
acgal6p_c0 has no modelseed ID!
kdnp_c0 has no modelseed ID!
cpd15522_c0 has modelseed ID cpd15522 but does not have a valid deltaG!
cpd15327_c0 has modelseed ID cpd15327 but does not have a valid deltaG!
cpd15524_c0 has modelseed ID cpd15524 but does not have a valid deltaG!
cpd15526_c0 has modelseed ID cpd15526 but does not have a valid deltaG!
1aipdecg3p_c0 has no modelseed ID!
aipdcoa_c0 has no modelseed ID!
paai15_c0 has no modelseed ID!
aihpdcoa_c0 has no modelseed ID!
1aihpdecg3p_c0 has no modelseed ID!
paai17_c0 has no modelseed ID!
itdcoa_c0 has no modelseed ID!
1itdecg3p_c0 has no modelseed ID!
pai14_c0 has no modelseed ID!
ipdcoa_c0 has no modelseed ID!
1ipdecg3p_c0 has no modelseed ID!
pai15_c0 has no modelseed ID!
ihdcoa_c0 has no modelseed ID!
1ihdecg3p_c0 has no modelseed ID!
pai16_c0 has no modelseed ID!
ihpdcoa_c0 has no modelseed ID!
1ihpdecg3p_c0 has no modelseed ID!
pai17_c0 has no modelseed ID!
cpd11494_c0 has modelseed ID cpd11494 but does not have a valid deltaG!
cpd12370_c0 has modelseed ID cpd12370 but does not have a valid deltaG!
cpd00421_c0 has modelseed ID cpd00421 but does not have a valid deltaG!
cpd00166_e0 has modelseed ID cpd00166 but does not have a valid deltaG!
cpd00166_c0 has modelseed ID cpd00166 but does not have a valid deltaG!
galam6p_c0 has no modelseed ID!
ncptrc_c0 has no modelseed ID!
cpd15521_c0 has modelseed ID cpd15521 but does not have a valid deltaG!
cpd15268_c0 has modelseed ID cpd15268 but does not have a valid deltaG!
cpd15328_c0 has modelseed ID cpd15328 but does not have a valid deltaG!
cpd11825_c0 has modelseed ID cpd11825 but does not have a valid deltaG!
cpd15527_c0 has modelseed ID cpd15527 but does not have a valid deltaG!
s2l2n2m2m_e0 has no modelseed ID!
s2l2n2m2mn_e0 has no modelseed ID!
chtbs_e0 has no modelseed ID!
n2m2mn_e0 has no modelseed ID!
m2mn_e0 has no modelseed ID!
cpd11421_c0 has modelseed ID cpd11421 but does not have a valid deltaG!
cpd11420_c0 has modelseed ID cpd11420 but does not have a valid deltaG!
14mpalmACP_c0 has no modelseed ID!
alaasp_c0 has no modelseed ID!
alaasp_e0 has no modelseed ID!
alaglu_c0 has no modelseed ID!
alaglu_e0 has no modelseed ID!
alagly_c0 has no modelseed ID!
alagly_e0 has no modelseed ID!
alathr_c0 has no modelseed ID!
alathr_e0 has no modelseed ID!
cpd03485_c0 has modelseed ID cpd03485 but does not have a valid deltaG!
cpd15494_c0 has modelseed ID cpd15494 but does not have a valid deltaG!
amannan140_e0 has no modelseed ID!
2dmmql10_c0 has no modelseed ID!
mql10_c0 has no modelseed ID!
2dmmql11_c0 has no modelseed ID!
mql11_c0 has no modelseed ID!
2dmmql7_c0 has no modelseed ID!
cpd11451_c0 has modelseed ID cpd11451 but does not have a valid deltaG!
2dmmql9_c0 has no modelseed ID!
mql9_c0 has no modelseed ID!
strch1_e0 has no modelseed ID!
strch2_e0 has no modelseed ID!
amylose300_e0 has no modelseed ID!
starch1200_e0 has no modelseed ID!
pmACP_c0 has no modelseed ID!
arabttr_e0 has no modelseed ID!
arabinan101_e0 has no modelseed ID!
arabinogal_e0 has no modelseed ID!
argarg_c0 has no modelseed ID!
argarg_e0 has no modelseed ID!
Largn_c0 has no modelseed ID!
hspg_degr_4_e0 has no modelseed ID!
hspg_degr_5_e0 has no modelseed ID!
hspg_degr_9_e0 has no modelseed ID!
hspg_degr_10_e0 has no modelseed ID!
hspg_degr_3_e0 has no modelseed ID!
hspg_degr_8_e0 has no modelseed ID!
mn_e0 has no modelseed ID!
apoC_Lys_c0 has no modelseed ID!
apoC_Lys_btn_c0 has no modelseed ID!
cpd00063_e0 has modelseed ID cpd00063 but does not have a valid deltaG!
cpd00063_c0 has modelseed ID cpd00063 but does not have a valid deltaG!
cpd15836_c0 has modelseed ID cpd15836 but does not have a valid deltaG!
cpd15836_e0 has modelseed ID cpd15836 but does not have a valid deltaG!
cpd00635_e0 has modelseed ID cpd00635 but does not have a valid deltaG!
cpd00635_c0 has modelseed ID cpd00635 but does not have a valid deltaG!
cpd00110_c0 has modelseed ID cpd00110 but does not have a valid deltaG!
cpd00109_c0 has modelseed ID cpd00109 but does not have a valid deltaG!
cpd01012_c0 has modelseed ID cpd01012 but does not have a valid deltaG!
cpd01012_e0 has modelseed ID cpd01012 but does not have a valid deltaG!
cdpglc_c0 has no modelseed ID!
cdpddg_c0 has no modelseed ID!
cer1_bt_c0 has no modelseed ID!
sphmyln_bt_c0 has no modelseed ID!
pe_cer1_bt_c0 has no modelseed ID!
kdn_c0 has no modelseed ID!
ckdn_c0 has no modelseed ID!
cpd15536_c0 has modelseed ID cpd15536 but does not have a valid deltaG!
cpd15426_c0 has modelseed ID cpd15426 but does not have a valid deltaG!
cpd15538_c0 has modelseed ID cpd15538 but does not have a valid deltaG!
cpd15428_c0 has modelseed ID cpd15428 but does not have a valid deltaG!
cpd15540_c0 has modelseed ID cpd15540 but does not have a valid deltaG!
cpd15430_c0 has modelseed ID cpd15430 but does not have a valid deltaG!
pgai15_c0 has no modelseed ID!
clpnai15_c0 has no modelseed ID!
pgai17_c0 has no modelseed ID!
clpnai17_c0 has no modelseed ID!
pgi14_c0 has no modelseed ID!
clpni14_c0 has no modelseed ID!
pgi15_c0 has no modelseed ID!
clpni15_c0 has no modelseed ID!
pgi16_c0 has no modelseed ID!
clpni16_c0 has no modelseed ID!
pgi17_c0 has no modelseed ID!
clpni17_c0 has no modelseed ID!
cpd00149_c0 has modelseed ID cpd00149 but does not have a valid deltaG!
cpd00149_e0 has modelseed ID cpd00149 but does not have a valid deltaG!
cps_bt_c0 has no modelseed ID!
cps_bt_e0 has no modelseed ID!
cspg_a_degr_e0 has no modelseed ID!
acgalglcur_e0 has no modelseed ID!
cspg_b_degr_e0 has no modelseed ID!
acgalidour2s_e0 has no modelseed ID!
cspg_c_degr_e0 has no modelseed ID!
cspg_a_e0 has no modelseed ID!
cspg_ab_rest_e0 has no modelseed ID!
cspg_b_e0 has no modelseed ID!
cspg_c_e0 has no modelseed ID!
cspg_c_rest_e0 has no modelseed ID!
cspmd_c0 has no modelseed ID!
cpd00099_e0 has modelseed ID cpd00099 but does not have a valid deltaG!
cpd00099_c0 has modelseed ID cpd00099 but does not have a valid deltaG!
cpd00058_e0 has modelseed ID cpd00058 but does not have a valid deltaG!
cpd00058_c0 has modelseed ID cpd00058 but does not have a valid deltaG!
cpd15309_c0 has modelseed ID cpd15309 but does not have a valid deltaG!
l2a6o_c0 has no modelseed ID!
cpd15417_c0 has modelseed ID cpd15417 but does not have a valid deltaG!
cpd15423_c0 has modelseed ID cpd15423 but does not have a valid deltaG!
cpd15419_c0 has modelseed ID cpd15419 but does not have a valid deltaG!
cpd15420_c0 has modelseed ID cpd15420 but does not have a valid deltaG!
cdpdaipdecg_c0 has no modelseed ID!
cdpdaihpdecg_c0 has no modelseed ID!
cdpditdecg_c0 has no modelseed ID!
cdpdipdecg_c0 has no modelseed ID!
cdpdihdecg_c0 has no modelseed ID!
cdpdihpdecg_c0 has no modelseed ID!
cpd11658_e0 has modelseed ID cpd11658 but does not have a valid deltaG!
dkdglcn_c0 has no modelseed ID!
6hmhptpp_c0 has no modelseed ID!
cpd15830_c0 has modelseed ID cpd15830 but does not have a valid deltaG!
cpd15851_c0 has modelseed ID cpd15851 but does not have a valid deltaG!
cpd15360_c0 has modelseed ID cpd15360 but does not have a valid deltaG!
dt5hsu_e0 has no modelseed ID!
dt5hsu_c0 has no modelseed ID!
gACPm_c0 has no modelseed ID!
pmACPm_c0 has no modelseed ID!
14mpentdecACP_c0 has no modelseed ID!
15mpalmACP_c0 has no modelseed ID!
kdolipid4_bt_c0 has no modelseed ID!
kdolipid4L_bt_c0 has no modelseed ID!
2omfuc_e0 has no modelseed ID!
2omxyl_e0 has no modelseed ID!
3ddlhept_e0 has no modelseed ID!
Ser_Thr_e0 has no modelseed ID!
T_antigen_e0 has no modelseed ID!
Tn_antigen_e0 has no modelseed ID!
acerA_e0 has no modelseed ID!
acgalidour_e0 has no modelseed ID!
apio_D_e0 has no modelseed ID!
core2_e0 has no modelseed ID!
core3_e0 has no modelseed ID!
core4_e0 has no modelseed ID!
core5_e0 has no modelseed ID!
core6_e0 has no modelseed ID!
core7_e0 has no modelseed ID!
core8_e0 has no modelseed ID!
dsT_antigen_e0 has no modelseed ID!
f1a_e0 has no modelseed ID!
cpd03725_e0 has modelseed ID cpd03725 but does not have a valid deltaG!
fucneulacnhx_e0 has no modelseed ID!
galam_e0 has no modelseed ID!
gam26s_e0 has no modelseed ID!
gchola_e0 has no modelseed ID!
glyasn_e0 has no modelseed ID!
glyasp_e0 has no modelseed ID!
glycogen1500_e0 has no modelseed ID!
glyglu_e0 has no modelseed ID!
cpd15604_e0 has modelseed ID cpd15604 but does not have a valid deltaG!
cpd15605_e0 has modelseed ID cpd15605 but does not have a valid deltaG!
glypro_e0 has no modelseed ID!
cpd15606_e0 has modelseed ID cpd15606 but does not have a valid deltaG!
gncore1_e0 has no modelseed ID!
gncore2_e0 has no modelseed ID!
ha_e0 has no modelseed ID!
ha_deg1_e0 has no modelseed ID!
ha_pre1_e0 has no modelseed ID!
cpd00531_e0 has modelseed ID cpd00531 but does not have a valid deltaG!
homogal_e0 has no modelseed ID!
hspg_e0 has no modelseed ID!
hspg_degr_1_e0 has no modelseed ID!
hspg_degr_11_e0 has no modelseed ID!
hspg_degr_12_e0 has no modelseed ID!
hspg_degr_13_e0 has no modelseed ID!
hspg_degr_14_e0 has no modelseed ID!
hspg_degr_15_e0 has no modelseed ID!
hspg_degr_2_e0 has no modelseed ID!
hspg_degr_6_e0 has no modelseed ID!
hspg_degr_7_e0 has no modelseed ID!
hspg_rest_e0 has no modelseed ID!
idour_e0 has no modelseed ID!
indlac_e0 has no modelseed ID!
isobut_e0 has no modelseed ID!
isocapr_e0 has no modelseed ID!
isoval_e0 has no modelseed ID!
cpd00205_e0 has modelseed ID cpd00205 but does not have a valid deltaG!
kesto_e0 has no modelseed ID!
kestopt_e0 has no modelseed ID!
kestottr_e0 has no modelseed ID!
l2n2m2mn_e0 has no modelseed ID!
lacdfucttr_e0 has no modelseed ID!
lacndfuchx_e0 has no modelseed ID!
lacnfucpt_e0 has no modelseed ID!
lacnnttr_e0 has no modelseed ID!
lacnttr_e0 has no modelseed ID!
leugly_e0 has no modelseed ID!
leuleu_e0 has no modelseed ID!
levan1000_e0 has no modelseed ID!
levanb_e0 has no modelseed ID!
levanttr_e0 has no modelseed ID!
levantttr_e0 has no modelseed ID!
lmn2_e0 has no modelseed ID!
lmn30_e0 has no modelseed ID!
lps_bt_e0 has no modelseed ID!
cpd15494_e0 has modelseed ID cpd15494 but does not have a valid deltaG!
manb_e0 has no modelseed ID!
manpt_e0 has no modelseed ID!
mantr_e0 has no modelseed ID!
manttr_e0 has no modelseed ID!
mbenz_e0 has no modelseed ID!
metala_e0 has no modelseed ID!
cpd00030_e0 has modelseed ID cpd00030 but does not have a valid deltaG!
mqn10_e0 has no modelseed ID!
mqn11_e0 has no modelseed ID!
mqn9_e0 has no modelseed ID!
neulacnttr_e0 has no modelseed ID!
oligofru4_e0 has no modelseed ID!
cpd04097_e0 has modelseed ID cpd04097 but does not have a valid deltaG!
pe_cer1_bt_e0 has no modelseed ID!
pect_e0 has no modelseed ID!
pecticgal_e0 has no modelseed ID!
phearg_e0 has no modelseed ID!
cpd00028_e0 has modelseed ID cpd00028 but does not have a valid deltaG!
phppa_e0 has no modelseed ID!
plac_e0 has no modelseed ID!
pullulan1200_e0 has no modelseed ID!
rhamnogalurI_e0 has no modelseed ID!
rhamnogalurII_e0 has no modelseed ID!
s2l2fn2m2masn_e0 has no modelseed ID!
s2l2n2m2masn_e0 has no modelseed ID!
sT_antigen_e0 has no modelseed ID!
sTn_antigen_e0 has no modelseed ID!
sphmyln_bt_e0 has no modelseed ID!
stys_e0 has no modelseed ID!
unsdigalur_e0 has no modelseed ID!
cpd00034_e0 has modelseed ID cpd00034 but does not have a valid deltaG!
cpd15237_c0 has modelseed ID cpd15237 but does not have a valid deltaG!
cpd15238_c0 has modelseed ID cpd15238 but does not have a valid deltaG!
cpd15269_c0 has modelseed ID cpd15269 but does not have a valid deltaG!
cpd15274_c0 has modelseed ID cpd15274 but does not have a valid deltaG!
cpd11438_c0 has modelseed ID cpd11438 but does not have a valid deltaG!
cpd11433_c0 has modelseed ID cpd11433 but does not have a valid deltaG!
cpd11430_c0 has modelseed ID cpd11430 but does not have a valid deltaG!
cpd11436_c0 has modelseed ID cpd11436 but does not have a valid deltaG!
cpd11440_c0 has modelseed ID cpd11440 but does not have a valid deltaG!
cpd11431_c0 has modelseed ID cpd11431 but does not have a valid deltaG!
cpd11620_c0 has modelseed ID cpd11620 but does not have a valid deltaG!
cpd11621_c0 has modelseed ID cpd11621 but does not have a valid deltaG!
10fthf5glu_c0 has no modelseed ID!
cpd06227_c0 has modelseed ID cpd06227 but does not have a valid deltaG!
mqn10_c0 has no modelseed ID!
mqn11_c0 has no modelseed ID!
mqn9_c0 has no modelseed ID!
ggdp_c0 has no modelseed ID!
levanb_c0 has no modelseed ID!
5forthf_c0 has no modelseed ID!
galam_c0 has no modelseed ID!
glc_bD_c0 has no modelseed ID!
cpd12005_c0 has modelseed ID cpd12005 but does not have a valid deltaG!
cpd11830_c0 has modelseed ID cpd11830 but does not have a valid deltaG!
cpd12225_c0 has modelseed ID cpd12225 but does not have a valid deltaG!
gchola_c0 has no modelseed ID!
glyasn_c0 has no modelseed ID!
glyasp_c0 has no modelseed ID!
glyglu_c0 has no modelseed ID!
cpd15604_c0 has modelseed ID cpd15604 but does not have a valid deltaG!
cpd15605_c0 has modelseed ID cpd15605 but does not have a valid deltaG!
glypro_c0 has no modelseed ID!
cpd15606_c0 has modelseed ID cpd15606 but does not have a valid deltaG!
cpd00028_c0 has modelseed ID cpd00028 but does not have a valid deltaG!
cpd00531_c0 has modelseed ID cpd00531 but does not have a valid deltaG!
indlac_c0 has no modelseed ID!
cpd15876_c0 has modelseed ID cpd15876 but does not have a valid deltaG!
cpd15877_c0 has modelseed ID cpd15877 but does not have a valid deltaG!
isobut_c0 has no modelseed ID!
isocapr_c0 has no modelseed ID!
isoval_c0 has no modelseed ID!
cpd00205_c0 has modelseed ID cpd00205 but does not have a valid deltaG!
leugly_c0 has no modelseed ID!
leuleu_c0 has no modelseed ID!
lipidX_bt_c0 has no modelseed ID!
u2ga_bt_c0 has no modelseed ID!
lipidAds_bt_c0 has no modelseed ID!
core_lps_bt_c0 has no modelseed ID!
lps_bt_c0 has no modelseed ID!
malcoam_c0 has no modelseed ID!
mantr_c0 has no modelseed ID!
mbenz_c0 has no modelseed ID!
metala_c0 has no modelseed ID!
cpd15498_c0 has modelseed ID cpd15498 but does not have a valid deltaG!
cpd00030_c0 has modelseed ID cpd00030 but does not have a valid deltaG!
lipidA_bt_c0 has no modelseed ID!
nicrns_c0 has no modelseed ID!
cpd02968_c0 has modelseed ID cpd02968 but does not have a valid deltaG!
cpd04097_c0 has modelseed ID cpd04097 but does not have a valid deltaG!
cpd15531_c0 has modelseed ID cpd15531 but does not have a valid deltaG!
cpd15542_c0 has modelseed ID cpd15542 but does not have a valid deltaG!
cpd15535_c0 has modelseed ID cpd15535 but does not have a valid deltaG!
cpd15543_c0 has modelseed ID cpd15543 but does not have a valid deltaG!
cpd15545_c0 has modelseed ID cpd15545 but does not have a valid deltaG!
cpd15547_c0 has modelseed ID cpd15547 but does not have a valid deltaG!
cpd15548_c0 has modelseed ID cpd15548 but does not have a valid deltaG!
cpd15541_c0 has modelseed ID cpd15541 but does not have a valid deltaG!
pgpai15_c0 has no modelseed ID!
pgpai17_c0 has no modelseed ID!
pgpi14_c0 has no modelseed ID!
pgpi15_c0 has no modelseed ID!
pgpi16_c0 has no modelseed ID!
pgpi17_c0 has no modelseed ID!
phearg_c0 has no modelseed ID!
phppa_c0 has no modelseed ID!
plac_c0 has no modelseed ID!
cpd15654_c0 has modelseed ID cpd15654 but does not have a valid deltaG!
cpd15552_c0 has modelseed ID cpd15552 but does not have a valid deltaG!
cpd15528_c0 has modelseed ID cpd15528 but does not have a valid deltaG!
cpd15553_c0 has modelseed ID cpd15553 but does not have a valid deltaG!
cpd15529_c0 has modelseed ID cpd15529 but does not have a valid deltaG!
cpd15555_c0 has modelseed ID cpd15555 but does not have a valid deltaG!
cpd15557_c0 has modelseed ID cpd15557 but does not have a valid deltaG!
cpd15533_c0 has modelseed ID cpd15533 but does not have a valid deltaG!
cpd15558_c0 has modelseed ID cpd15558 but does not have a valid deltaG!
cpd15534_c0 has modelseed ID cpd15534 but does not have a valid deltaG!
psai15_c0 has no modelseed ID!
peai15_c0 has no modelseed ID!
psai17_c0 has no modelseed ID!
peai17_c0 has no modelseed ID!
psi14_c0 has no modelseed ID!
pei14_c0 has no modelseed ID!
psi15_c0 has no modelseed ID!
pei15_c0 has no modelseed ID!
psi16_c0 has no modelseed ID!
pei16_c0 has no modelseed ID!
psi17_c0 has no modelseed ID!
pei17_c0 has no modelseed ID!
adphep7p_LD_c0 has no modelseed ID!
xu1p_L_c0 has no modelseed ID!
2s5epchc_c0 has no modelseed ID!
stys_c0 has no modelseed ID!
succitr_L_c0 has no modelseed ID!
cpd16114_c0 has modelseed ID cpd16114 but does not have a valid deltaG!
u23ga_bt_c0 has no modelseed ID!
u2hga_bt_c0 has no modelseed ID!
cpd16103_c0 has modelseed ID cpd16103 but does not have a valid deltaG!
udpidour_c0 has no modelseed ID!
udpxyl_c0 has no modelseed ID!
cpd00034_c0 has modelseed ID cpd00034 but does not have a valid deltaG!
cpd11416_c0 has modelseed ID cpd11416 but does not have a valid deltaG!
WARNING:cobra.summary.model_summary:Non-linear or non-reaction model objective. Falling back to minimal display.
[11]:
Objective
nan Expression = nan
Uptake
| Metabolite | Reaction | Flux | C-Number | C-Flux |
|---|
Secretion
| Metabolite | Reaction | Flux | C-Number | C-Flux |
|---|