(tf5ddlZddlZddlZddlZddlmZddlZddlZddl Z ddl Z ddl m Z m Z mZmZej ej"ddddeej"dd d d eej"d d ddeej"ddddeej"ddddeej"ddddeej"ddddeej"ddd !ej"d"dd#!ej"d$dd%!ej"d&dd'(ej"d)d*d+eej"d,d-d.eej"d/d0d1eej"d2d3d4eej"d5d6d7ed8Z d:d9Zy);N)CONTAINER_PREFIXNETWORK_PREFIX REDIS_PREFIX REDIS_CONFz-tz --temp-dir/tmp/higlass-dockerzThe temp directory to use)defaulthelptypez-dz --data-dir ~/hg-dataz!The higlass data directory to usez-vz --versionlatestzeThe version of the Docker container to use (or "local" for images built locally using higlass-docker)z-pz--port#z0The port that the HiGlass instance should run onz-nz --hg-namerz"The name for this higlass instancez-sz --site-urlzXWhen creating an external-facing instance, enter its IP or hostname using this parameterz-mz --media-dirz2Use a specific media directory for uploaded files.z--public-data/--no-public-dataTz@Include or exclude public data in the list of available tilesets)rr z--default-track-optionsz4Specify a json file containing default track optionsz --workerszCSpecify a custom number of workers for the uWSGI application serverz --use-rediszHInitialize a Redis-based caching service and bind higlass instance to it)is_flagr z --redis-dir ~/redis-dataz(Use a specific directory for Redis filesz--hg-repositoryhiglass/higlass-dockerz2The Docker repository to use for the HiGlass imagez--redis-repositoryredisz0The Docker repository to use for the Redis imagez --redis-tag 5.0.3-alpinez4The Docker tag to use for the Redis image repositoryz --redis-portz#The port to use for the Redis imagec8t|||||||||| | | | | ||y)N)_start)temp_dirdata_dirversionporthg_namesite_url media_dir public_datadefault_track_optionsworkers use_redis redis_dir hg_repositoryredis_repository redis_tag redis_ports ^/var/www/html/software/conda/envs/higlass/lib/python3.12/site-packages/higlass_manage/start.pystartr's=f  !c 0djt|}tj} |jj |}t jjd|j|j| rdjt |}djt"|} |j$j'|g}|rJ|j$j |}t jjd|j |j$j-|d } |jj |}t jjd |j|jt jjdj| |t jj/|j0j3| |}t jjdt jj/t5j6| } t5j8| st;j<| t:j>jAt:j>jCt:j>jEtFdd}t:j>j9|sCt jjdj|t j*d| ddd|tHddi}djtH} |jjK|||||d}|dk(r|j0j d}nt jjdt jj/|j0j3| |}t jjdt jj/t5j6|}t5j6|}t5j8|st;j<|t5j8|st;j<|i}|||d <| | |d!<t jjd"j|t jjd#j||d$nd%j|}t jjd&j|||d'dd|dddi} |r d(dd| |<d(|d)<| s$|jjK|d*|i| ||d+}n/|d,<||d-<|jjK|d*|i| ||dd.}t jjd/j|d0}!d1}"|!s t jjd2j|"|"d1z }"tj d3j|d45}#|#jPd6k7rNt jjd7j|#jPtSjTd8nd}!|!st jjd;j||r|6tYjZ}$dg|'d?<d}!d@|'dA}'|j]dB}&tjfdCj||'D}&t jjdEj|&jb|j]dFj$}&t jjdEj|&|dti|dG5}(t_jj|(})dHjt_jl|)}%|%dIz }%|j]|%}&ddddJ}%|%dKz }%|j]|%}&dL}%|%dKz }%|j]|%}&t jjdMt jjdNy#tjj$rYtjj$r"t jjdYywxYw#tjj($r8t jjdt j*dYwxYw#tjj($rN}t jjd j|t j*dYd}~d}~wwxYw#tjj$rYtjj$r8t jjd t j*dY wxYw#tjjL$rN}t jjdj|t j*dYd}~d}~wtjjN$rN}t jjdj|t j*dYd}~d}~wtjj($rN}t jjdj|t j*dYd}~Rd}~wwxYw#tjj$r8t jjd9tSjTd8YltjjV$r8t jjd:tSjTd8YwxYw#1swYxYw)Oz" Start a HiGlass instance z{}-{}z&Stopping previously running container zVError connecting to the Docker daemon, make sure it is started and you are logged in. N)namesz6Attempting to remove existing Docker network instance zHError: Could not access Docker network list to remove existing network. bridge)driverz-Error: Could not access Docker network ({}). z,Stopping previously running Redis container z]Error: Error connecting to the Docker daemon, make sure it is started and you are logged in. zPulling {}:{} )tagzdone rz redis.confz6Error: Could not locate Redis configuration file [{}] z/datarw)bindmodezredis-server {}T)namenetworkvolumesdetachz/Error: Redis container could not be started {} z3Error: Redis container image could not be found {} z8Error: Redis container server ran into a fatal error {} localz image-defaultzPulling latest image... SITE_URLWORKERSzData directory: {} zTemp directory: () z:{}zStarting... {} {} z/tmpz/mediaHIGLASS_MEDIA_ROOTP)portsr4r2 environmentr5 REDIS_HOST REDIS_PORT)r3r<r4r2r=publish_all_portsr5zDocker started: {} Fzsending request {} z/http://localhost:{}/api/v1/viewconfs/?d=default)timeoutz.Non 200 status code returned ({}), waiting... g?zWaiting to start (tilesets)... zRequest timed out zpublic_data: {} zYbash -c 'cp higlass-app/static/js/main.*.chunk.js higlass-app/static/js/main.{}.chunk.js'zutf-8z/api/v1trackSourceServers default_local)uidviewconfzpython higlass-server/manage.py shell --command="import tilesets.models as tm; o = tm.ViewConf.objects.get(uuid='default_local'); o.delete();" z%http://localhost:{}/api/v1/viewconfs/)jsonzret: {} z^bash -c 'sed -i '"'"'s/"default"/"default_local"/g'"'"' higlass-app/static/js/main.*.chunk.js'rzobash -c 'sed -i '"'"'s/assign({{}},this.props.options/assign({{defaultOptions: {} }},this.props.options/g'"'"' z' higlass-app/static/js/main.*.chunk.js'zDbash -c 'sed -i '"'"'s/main.*.chunk.js/main.invalid.chunk.js/g'"'"' z$ higlass-app/precache-manifest.*.js'zMbash -c 'sed -i '"'"'s/index.html/index_invalidated_by_higlass_manage/g'"'"' zReplaced js file zStarted )7formatrdockerfrom_env containersgetsysstderrwritestopremoveerrorsNotFoundrequests exceptionsConnectionErrorrrnetworkslistAPIErrorexitcreateflushimagespullop expanduserexistsosmakedirspathjoindirnamerealpath__file__rrunContainerError ImageNotFound status_codetimesleep ReadTimoutslugidniceexec_runrIloadscontentdecodepostopenloaddumps)*rrrrrrrrrrr r!r"r#r$r%hg_container_nameclient hg_container network_name redis_name network_listr3errredis_container redis_image redis_conf redis_volumes redis_commandhg_imagehg_environmenthg_version_addition hg_volumesstartedcounterreqnew_hash sed_commandretconfigfdefault_options_jsons* r&rrs * '7A __ F ((,,->?  BC~~ng> ^^L':  !??//|n/EL //--l;   M  oo,,\(,KG $//33J?O JJ  L M  "  " " $ *112BINO mm(()9y(I  " MM), yy# KK "WW\\ GGOOBGG,,X6 7, ww~~j) JJ  IPP  HHRL 6 T: *00<  $//33$% 4O0'==$$_5 56 ==%%mW= " }}X&H}}X&H 99X  H 99X  HN%-z"$+y!JJ+228<=JJ+228<= '"U\\'5JJJ*11'4@A6407D1J )14 @ 9/7+, ((,, t*"& - (2|$'1|$((,,  t*"&"-  JJ+223DEFGG  JJ  3::7C D qLG,,AHHNC #%   ELL  3%4JJ(// <= /;;;=u||  ##K0 CKK..w78(1{#$(f=## b mm 3 : :4 @v  ++CKK89## p w w   ++C01( ' - 5#'99Q< PWW /0K D DK'' 4C 5 S99K    ,CfK99K    ,CJJ)*JJ[!W == ! !     . .  e   &}}%%  JJ  [  HHRL  }}%%  JJ  @GGL  HHRLL  }}%%  ""22  JJ  p  HHRL  ^}}++  JJ  CJJ3O  HHRLL}}**  JJ  GNNsS  HHRLL}}%%  JJ  LSSTWX  HHRLL  |""22  JJ  ? @ JJsO""--  JJ  2 3 JJsO P 5 5sAd6A)e# f;>Ah)%!j B8o ;Ar e ";e e #Af87f8;h&Ah!!h&)j Ajj o=Al o&Am// oAoo Ar4Arr r)rr r r rNNTNNFrrrrr)clickrLrIreos.pathrgrbrWrsrPrphiglass_manage.commonrrrrcommandoptionstrintr'rr(r&rs    ! $   ,   p   ;   -   c   = $  K   ?   N   S   3   $ =    ;    ?  D'LSV#        B#N#     *!j"r(