Due& date:& 5pm,& Friday& of& Week13& .Late& Penalty:& Late& submissions& will& be& penalised& at& the& rate& of& 10%& per& day(including& weekends).& The& penalty& applies& to& the& maximum& available& mark.& Forexample,& if& you& submit& 2& days& late,& maximum& available& marks& is& 80%& of& theassignment& marks.& Submissions& will& not& be& accepted& after& 5pm& Tuesday& of& WeekYou& need& to& work& in& a& group& of& two& with& the& restriction& that& your& group& partnermust& come& from& the& same& lab& class& (i.e.& same& lab& time& slot& and& lab& room).& Youmust& register& the& pair& with& your& tutor& no& later& than& the& Week& 11& lab& class.& If& you& wantto& work& on& your& own,& please& check& with& your& tutor.Change& log& :05:35am& Mon& 21& May:& Please& download& the& following& updated& files:set1_check.pickle& (diff& should& be& now& zero& or& very& low,& say& less& than& 10^4)set2_check.pickle& (diff& should& be& now& zero& or& very& low,& say& less& than& 10^4)test_2B.py& (in& &"import&",& design.py& changed& to& design)10:35am& Wed& 16& May:& Test& files& for& 2A& and& 2B& are& now& available:& test_2A.py& andtest_2B.py09:20am& Tue& 15& May& (changes& marked& with& lightcyan& background)Due& date& is& 5pm& Friday& of& Week13.In& part& 2A& and& 2B,& alpha_b& and& alpha_a& should& be& replaced& by& alpha_b_array& andalpha_p_array& respectively.The& following& updated& files& are& now& available:test_1A_1B.pytest_2A.pytest_2B.pyIntroductionWe& often& think& bacteria& are& bad.& The& truth& is& that& there& are& many& different& types& of& bacteria& in& this& world.& Somebacteria& are& harmful& to& humans& but& some& bacteria& in& our& bodies& help& us& to& live.& Have& you& ever& considered& thepossibility& that& bacteria& can& also& be& &"factory& workers&"?& Engineers& and& scientists& are& working& on& using& bacteria& toproduce& certain& chemicals& and& materials.& An& example& is& to& use& bacteria& to& produce& fuel& for& us.& In& engineering,& weoften& want& to& optimise& the& process,& so& we& may& want& to& make& the& bacteria& to& produce& as& much& fuel& as& possible& ina& given& time.& However,& there& are& often& constraints& in& nature.& The& truth& is& that& fuel& is& toxic& to& bacteria,& so& we& needto& find& a& way& for& the& bacteria& to& make& a& lot& of& fuel& but& at& the& same& time& keep& them& alive!& This& biofuel& productionprocess& is& the& theme& of& this& assignment.The& aim& of& this& assignment& is& to& give& you& an& opportunity& to& work& on& a& smallscale& engineering& design& problem& inpython.& The& engineering& system& that& you& will& be& working& on& is& biofuel& production.& Your& goal& is& to& determine& thedesign& parameters& so& that& the& bacteria& can& produce& as& much& fuel& as& possible& while& respecting& a& couple& ofconstraints.& You& will& use& simulation& as& part& of& the& design& process.& & For& this& assignment,& you& need& to& work& in& a& group& of& two& with& the& restriction& that& your& group& partner& must& comefrom& the& same& lab& class& (i.e.& same& lab& time& slot& and& lab& room).& If& you& want& to& work& on& your& own,& please& checkwith& your& tutor.& & Learning& objectivesThis& assignment& is& designed& to& give& you& practice& in2018/5/28 ENGG1811& Assignment& 2http://www.cse.unsw.edu.au/~en1811/18s1/assigns/ass2/ass2.html 2/9Applying& programming& to& solve& a& simple& engineering& design& problemWriting& a& python& program& to& simulate& an& engineering& systemApplying& a& number& of& python& features,& which& include& arraytorisation,& builtin& functions& and& others& Applying& good& software& engineering& practices,& which& includes& proper& documentation,& program& styleWorking& with& a& partner& (if& applicable)Assignment& overviewThis& assignment& is& design& to& imitate& engineering& design.& You& will& see& the& following& elements:1.& (Simulation)& Simulation& of& a& biofuel& production& system& with& different& design& parameters.2.& (Design)& Evaluate& the& performance& of& the& systems& that& you& have& simulated.Download& files:& There& are& a& number& of& python& files& that& you& need& to& do& thisassignment.& These& files& are& in& assign2.zip.& We& will& first& talk& about& the& tasksinvolved,& and& later& introduce& these& supplied& files,& see& Supplied& Files& for& more.We& will& first& give& an& introduction& to& biofuel& production.& This& introduction& is& meant& to& give& you& some& intuition& on& thedesign& problem.& After& that& we& will& tell& you& what& you& need& to& do& for 代写Python编程、Python Simulation and Design of BiofuelProduction;the& assignment.Biofuel& production& processWe& will& give& you& a& basic& mental& picture& that& you& can& use& to& visualise& biofuel& production.& A& pictorial& representationof& a& bacterium& is& in& Figure& 1.& A& bacterium& is& a& singlecell& organism.& It& has& a& cell& membrane,& which& you& can& thinkabout& as& the& &"skin&"& of& a& bacterium.& By& using& bioengineering,& we& can& get& the& bacteria& to& produce& fuel& for& us.& Thisproduction& will& take& place& within& the& bacteria,& i.e.& inside& the& cell& membrane& of& the& bacteria.Figure& 1.& A& pictorial& depiction& of& the& main& elements& of& a& bacterium& for& biofuel& production.& Now& that& you& know& that& fuel& is& produced& inside& the& membrane& of& bacteria,& the& next& thing& you& need& to& know& is& thathaving& the& fuel& staying& inside& the& bacteria& is& neither& good& for& us& nor& the& bacteria.& It& is& not& good& for& us& because& wecannot& collect& the& fuel.& It& is& not& good& for& the& bacteria& because& it& is& toxic& to& them.& This& means& we& need& a& way& to& getthe& fuel& from& the& inside& of& the& membrane& to& the& outside.& A& good& news& is& that& bacteria& can& make& efflux& pumps& onthe& membrane& to& push& the& fuel& from& the& inside& of& the& membrane& to& the& outside.& With& these& efflux& pumps,& we& can& reduce& the& amount& of& fuel& in& the& bacteria& (i.e.& toxicity& level)& and& collect& the& fuel,solving& the& problem& that& we& talked& about& in& the& last& paragraph,& but& there& is& one& catch.& Efflux& pumps,& thoughuseful,& can& be& a& burden& to& the& bacteria.& This& means& that& a& bacterium& should& not& have& too& many& efflux& pumps.& Aclever& way& is& to& get& the& bacteria& to& make& efflux& pumps& on& demand.& If& a& bacterium& senses& that& there& is& a& lot& of& fuelinside& its& membrane,& it& should& make& more& efflux& pumps& to& expel& the& fuel;& and& vice& versa.& With& the& help& ofbioengineering,& it& is& possible& to& have& biosensors& in& bacteria& to& sense& the& amount& of& fuel& in& the& bacteria.The& above& mental& picture& should& give& you& the& intuition& you& need& for& the& biofuel& production& process.& In& order& to& doengineering& design,& we& need& a& mathematical& model& which& we& will& discuss& next.A& mathematical& model& for& the& biofuel& production& processFrom& the& biofuel& production& description& that& we& have& discussed& above,& you& know& that& we& are& interested& in& a& fewquantities:& the& amount& of& biofuel& inside& the& bacteria& because& this& is& related& to& the& toxicity& level;& and,& the& amount& ofbiofuel& outside& the& bacteria& because& this& is& the& amount& that& we& can& collect.& We& would& like& to& have& a& mathematical2018/5/28 ENGG1811& Assignment& 2http://www.cse.unsw.edu.au/~en1811/18s1/assigns/ass2/ass2.html 3/9model& which& tells& us& how& these& two& quantities& vary& over& time.& The& mathematical& model& can& tell& us& how& thefollowing& five& quantities& vary& over& time:& & The& amount& of& bacteria& in& the& colony& denoted& by& the& mathematical& symbol& n.& Note& that& we& scale& theamount& by& the& maximum& possible& of& bacteria& so& n& is& a& number& in& the& interval& [0,1].& The& biosensor& output& denoted& by& R& which& is& a& nonnegative& real& number.& The& amount& of& efflux& pumps,& denoted& by& p,& which& is& a& nonnegative& real& number.The& amount& of& biofuel& in& the& interior& of& the& bacteria,& denoted& by& bi,& which& is& a& nonnegative& real& number.We& also& call& this& internal& biofuel.The& amount& of& biofuel& in& the& exterior& of& the& bacteria,& denoted& by& be,& which& is& a& nonnegative& real& number.We& also& call& this& external& biofuel.You& will& use& simulation& to& determine& these& five& quantities.& There& are& two& design& parameters& which& we& will& vary,& they& are:The& biofuel& production& rate& αb.& (python& variable& name& alpha_b)The& efflux& pump& production& rate& αp.& (python& variable& name& alpha_p)We& have& placed& the& mathematical& model& for& the& biofuel& on& a& separate& page.& We& believe& it& is& best& for& you& tounderstand& what& you& need& to& do& for& this& assignment& first& before& dwelling& into& the& mathematical& model.& Youshould& be& able& to& understand& what& you& need& to& do& for& the& assignment& without& going& into& the& mathematical& modelat& this& stage.& (The& model& is& here& and& you& can& read& it& later.)& The& mathematical& model& for& biofuel& production& isbased& on& Reference& [1].& 转自：http://ass.3daixie.com/2018060769870055.html
