77298df22048eb8b94588a73bdc500b2 *DESCRIPTION
b373888d644f605aa6f7a7fd7395878b *NAMESPACE
9461fa389684aebb4e6b492bcaf665ed *R/addExchReact.R
902f85e9e12c5d7974c374152381e07a *R/addReact.R
aaa8b67a308fb0e571987510f0010764 *R/blockedReact.R
92fff0bf07dc6173ecc30d9ad6476768 *R/bracket_pairs.R
d378c30f7329d52306ebbc390fbb871c *R/ceilValues.R
a151620aa8243c6385df62e23a9128d1 *R/changeBounds.R
dd58b287ec905455ddf17b72f285f3ba *R/changeGPR.R
0c98a83bdf70a67c724f85b51401e9f5 *R/changeObjFunc.R
d93618802f09cfdf19aece79d8cd80ae *R/checkDefaultMethod.R
cbbb5457aa45599c4d4e5cc3c1dc8b28 *R/checkOptSol.R
6645ec49baf1eae161a0a43a05b56067 *R/checkReactId.R
d24115becb27e92e69c2192384ba1181 *R/check_brackets.R
0754fc7d3332f0b92774937ec76c6e9f *R/checksolClass.R
5139390da05b9b109d1c09046ee00273 *R/createReactionString.R
a63bd0215fa615f8a23931656cceba2c *R/deadEndMetabolite.R
5b74594d9ce8836d59e0b48e81296863 *R/doInRound.R
f689738543df9c370452722bcbf2b7d9 *R/doubleFluxDel.R
57e6c502e06953a38a6459dd8c61e3d8 *R/doubleGeneDel.R
06b497a0b5020d64cb3eafed772428dd *R/doubleReact.R
c6f23278fe8fb9a577d45dbaf0382664 *R/findExchReact.R
53debde87649f5429633093ad70efe46 *R/floorValues.R
ad20c0de74e6f871ae9b03974aacf0c5 *R/fluxDistributionClass.R
2ea5b9260cc8273b9f2c8c6cbaac23cb *R/fluxVar.R
22bfe84ac95f574746304dcd22c78cd3 *R/geneDel.R
eb387859d70bd6edd69f02e38692c4c7 *R/geneDeletion.R
0f2ff3c18de5f6a5ecb86b90152a90c1 *R/generics.R
55a6be85aa350a8b7ec063fbc410ae84 *R/mod2irrev.R
898bb8bb1af3d23b29b69bacdedef784 *R/modelorg2text.R
e4a25e9122d16edadc31e808f9f14a9c *R/modelorg2tsv.R
be335cf063d0d06cc186388674752d87 *R/modelorgClass.R
aad8b1ef91fe84b46cfd32e44c28b957 *R/modelorg_irrevClass.R
658393ae0d44dc0011c1cbe9182d684d *R/multiDel.R
ea5408e168d157e582bd703077813d1a *R/oneFluxDel.R
d283ca725588f16f941a8c7bc6661582 *R/oneGeneDel.R
7947ab6206a744fc42a00f818a8c7564 *R/onlyChangeGPR.R
d55bb45b70150001c4a03b2790d0669d *R/onlyCheckGPR.R
2863811a306a447a59a2300d776b8bae *R/optObjClass.R
e21c896d1eda46eebc2d6994e8077dba *R/optObj_basicfunc.R
a221318fe782effa4750575a3eb46bc4 *R/optObj_clpClass.R
e16cd6a5a202ac3513c2f4893e37bb0a *R/optObj_cplexClass.R
894d3c901e1218372d86f56a75c22690 *R/optObj_glpkClass.R
95043013ce1fc16181ef83a505000183 *R/optObj_lpSolveAPIClass.R
666a6667845acdc90bc4cfc4ef762a4a *R/optObj_lpSolveAPIcompat.R
33f7740841e1413c217d267b31755fd0 *R/optimizer.R
6fdd2fc0ebed372feddff7fc0ef1abdc *R/optsolClass.R
b369670aecfc4d8bd9b16f5a4418b109 *R/optsol_blockedReactClass.R
95b5e00c308f05058de620ac5ae6b889 *R/optsol_doublefluxdelClass.R
210944cc380f51c7fe0bd50a736b10d4 *R/optsol_doublegenedelClass.R
51cbd10eaa3b08e4c893e343e38ead93 *R/optsol_fluxVarClass.R
2ddd0905c3d43059b624ce47fc9eb125 *R/optsol_fluxdelClass.R
0e253c685412eaec5aeed8b6e4e4bf17 *R/optsol_genedelClass.R
849521e0810dd204c72c512d5309c223 *R/optsol_robAnaClass.R
7a180c26ae2af5f04b6e8500f997990f *R/optsol_simpleFBAClass.R
5d0dd5b930854f7b1ef3e50394c20068 *R/parseBoolean.R
b9538790553fc3d3dd42d3e17f4d5b4e *R/ppProcClass.R
165d17901e0bcfe7485dff454e98c9ee *R/ppProcessing.R
5ba8bca8898f3f5e99e403ffa9888f46 *R/prepProbObj.R
3727d65bd005e32eda76c213a8650905 *R/prepareSubSysMatrix.R
bf80e92984b283318205446dec47c855 *R/printLogComment.R
3d510f068f19a2c081e7cfb78959dca8 *R/printNamedList.R
edacc85b5ce6de1568fc48e196eb6b74 *R/printObjFunc.R
06fb77693db3927a826aa2eab7007a16 *R/progress.R
ba2c976dfa5b6205b5e76fe7e7343293 *R/reactIdClass.R
fa515bb3b9d8eb4049336d6b559a7a94 *R/readTEXTmod.R
e347a48a34352f94546fbb037bac90b9 *R/readTSVmod.R
1f6a5c60d8be9d8caadc0d40b43f1b1d *R/reassignFwBwMatch.R
6354306fbc32dbc810022452790190e4 *R/rmReact.R
c5c2880e363ab63b47baec440956f7a4 *R/robAna.R
98337615a78877aa766b06bb191b9f67 *R/settings.R
771f376c90d0380aa9c71d60c50aabc3 *R/simpleFBA.R
a7e8fbac129298dbdd724b372b9a2dcc *R/singletonMetabolite.R
3817e68dfcdb183ec4fec57a7f0341b1 *R/sybilErrorClass.R
2728801db50d2941b882e95dd08242f8 *R/sybilLogClass.R
17dfa03ea999c67525285318d1e14f31 *R/sybilStack.R
d443d1e3a411952e6d2b16cee5960c15 *R/validmodelorg.R
dd19017b88c3fba753283baab9491104 *R/validoptsol.R
5485d688730c8011d74753943e8431d6 *R/validreactId.R
ecd135c0e3b29c0fc13dac96669b52ab *R/ypd.R
3c071505041a8e50f193e0edc5b96f53 *R/zzz.R
8447a040c5a7d2587ccb3e151cc3afcf *data/Ec_core.RData
b099da1e28b60c23fb5875a18565067c *inst/NEWS.Rd
5671e6daf02a7fc3829f9070ccf09fe2 *inst/doc/optsol.Rnw
cf21b00671d9f631de882673229e2382 *inst/doc/optsol.pdf
cfc1877424972ddf8ade6a4722104ed7 *inst/doc/simpleFBA.Rnw
6fa7b4476bbb22e5af5cd3e6fe8cc3bf *inst/doc/simpleFBA.pdf
72dacac5d58350ed05c222079da21528 *inst/doc/sybil.Rnw
4a872ba7d625483380154f04287c6005 *inst/doc/sybil.pdf
57349ddd1c5292698b4f40828fb0a4c8 *inst/extdata/Ec_core_desc.tsv
a087d5c12df926906688674ba133e6a9 *inst/extdata/Ec_core_met.tsv
5e592ee880a444834fca2de9f320367a *inst/extdata/Ec_core_react.tsv
85212a39318ffd14ec23b85429f02540 *inst/extdata/rbc.tsv
c94a9ca15e74ec5de8c7be9976faeaed *man/Ec_core.Rd
732553827dd000db4137fa536557b31f *man/SYBIL_SETTINGS.Rd
244b2f7679e6f675d22c76c5b7f60f41 *man/addExchReact.Rd
201f60898b84a173b5408a1876c8fdb4 *man/addReact.Rd
1625a611cd23edf74f904bc043b8a7fe *man/blockedReact.Rd
ebca3e643e05683d7bd505d601916c24 *man/changeBounds.Rd
a2890084575f596d8f4b3269c8a9cd49 *man/changeGPR.Rd
dd9539764bc24f7e01b535ca482553c4 *man/changeObjFunc.Rd
9be96723cb7eec1ebe0f84bd0ba30ce2 *man/checkDefaultMethod.Rd
781cb4cbacdc65c7ecdf0abc4e3348ad *man/checkOptSol.Rd
19975268780fd3a564c518c8e2e15cac *man/checkReactId.Rd
6e1521ad618bd9701069b04a3e4e780c *man/checksol-class.Rd
e6381828792d8ade9a441cfe1ab0b63d *man/doubleFluxDel.Rd
f0ca6376fbbbabac875425dea3b4e4ca *man/doubleGeneDel.Rd
500a45045d381ccdb9af80e4e6911ae1 *man/doubleReact.Rd
04620f86f6d5d83e44716e98f4f84baa *man/findExchReact.Rd
f939904f1825f257cebcbbe6a380cd3b *man/fluxDistribution-class.Rd
5c7af4a49e589bb35c08cbf97e3131d5 *man/fluxVar.Rd
0d30e7b8a8bf27d36d9bfd9dbcd56b4d *man/geneDel.Rd
cda4de22e19f90d44ecba738d7609225 *man/geneDeletion.Rd
1739bb6798a683fa6f333e963cd1ef76 *man/mod2irrev.Rd
5ae8270163f7786c5ac7e3023d2286b6 *man/modelorg-class.Rd
46daece363cd93add9b7dd8beb28794f *man/modelorg2tsv.Rd
57f4ae694278958786a06910a9090639 *man/modelorg_irrev-class.Rd
48e9782fff1d7738e191fc9178b978eb *man/multiDel.Rd
fef4c48c7faad4e84bd6f0730027a090 *man/oneFluxDel.Rd
42be24cf834b7146bd447f0b9a58107f *man/oneGeneDel.Rd
36473471e1f8f96fc9e1b3aeb170f3b8 *man/onlyChangeGPR.Rd
d6ac7f0d2b36f8be8d30bdb6139e5435 *man/onlyCheckGPR.Rd
e662808a049cc6e1ec17f0f9cf4b3cd6 *man/optObj-class.Rd
af07ac597916e89a969deb56e0d88984 *man/optObj_clp-class.Rd
424a6bd4a0125a9295de3c2ab0e62be3 *man/optObj_cplex-class.Rd
86bd45a35ca77705644db2e3346a4784 *man/optObj_glpk-class.Rd
fb92592a1b6e53e10c68ead6ca81e080 *man/optObj_lpSolveAPI-class.Rd
e7df134e9d3d27b5f020ea1464910a6b *man/optimizer.Rd
80fdf8031aa9b0a95052aae099c236de *man/optsol-class.Rd
211fc15361a4aba03cab08fa8a37a3a1 *man/optsol_blockedReact-class.Rd
d84e6b8e71bad43c02ff082786e44eb6 *man/optsol_doublefluxdel-class.Rd
b926921e43c82a7854973b5dc04b2766 *man/optsol_doublegenedel-class.Rd
fab6c6ab9f62c17b5f3cf218554ab9e0 *man/optsol_fluxVar-class.Rd
52fcc305a3cc0de4d0c0e10244f25820 *man/optsol_fluxdel-class.Rd
ad6ade81fee3316ed86f5112befb6e72 *man/optsol_genedel-class.Rd
d796d62f4aedae54595bd8d4b994c68f *man/optsol_robAna-class.Rd
f726853e2d17772f338aa9d801c1a8ed *man/optsol_simpleFBA-class.Rd
3a04ffcad9edc7c59fd70c8a53c98513 *man/ppProc-class.Rd
534fbb678146b19409f8807ffc7ed3d2 *man/prepProbObj.Rd
1548fceea593ad19fea89155b68fd988 *man/printObjFunc.Rd
714428d10704b17877c174953976f37e *man/reactId-class.Rd
052ab8c2b723d483c85b5100bd2207a3 *man/readTSVmod.Rd
19291a1769e3d77264ce78815cb9836f *man/rmReact.Rd
bbd7c83caaf79fe1a04e1d4ba7ad8766 *man/robAna.Rd
1da328350c779e4a87c60a0866a8a22c *man/simpleFBA.Rd
94bd2a540bb4bb58f90c98342ae6517c *man/sybil-internal.Rd
9fc3e146558134673791a98470b7c857 *man/sybil-package.Rd
98b176864010ecc707365e9e8faf88aa *man/sybilError-class.Rd
452a705945fdecc23f585e8b9d60e645 *man/sybilLog-class.Rd
64b347beff6c25c402d2c6b9c1a0159c *man/sybilStack.Rd
cea331aefadefe7bd32f98a2180be635 *man/ypd.Rd
da5c6a7ec67524e81a79b9435f407c34 *vignettes/net-crop.pdf
5671e6daf02a7fc3829f9070ccf09fe2 *vignettes/optsol.Rnw
cfc1877424972ddf8ade6a4722104ed7 *vignettes/simpleFBA.Rnw
72dacac5d58350ed05c222079da21528 *vignettes/sybil.Rnw
06298923dea991e249bb53e22ba0d1b9 *vignettes/sybil.bib
