tf ddlmZddlZddlmZddlmZddlm Z ddl m Z ddl m Z e jejd d ej d d deddej dddddeej dddeeddej ddedej dddd ej d!d"dd#d$%d&Zy)'N)lock)coarsen_cooler)parse_cooler_uri)cli)parse_field_paramcool_uri COOL_PATH)metavarz--factorz-kzyGridding factor. The contact matrix is coarsegrained by grouping each chromosomal contact block into k-by-k element tilesT)helptypedefault show_defaultz--nprocz-nz-pzcNumber of processes to use for batch processing chunks of pixels [default: 1, i.e. no process pool])r rrz --chunksizez-cz*Number of pixels allocated to each processgcAz--fieldzSpecify the names of value columns to merge as ''. Repeat the `--field` option for each one. Use ',dtype=' to specify the dtype. Include ',agg=' to specify an aggregation function different from 'sum'.)r rmultiplez--outz-ozOutput file or URI)requiredr z--appendz-aFz_Pass this flag to append the output cooler to an existing file instead of overwriting the file.)is_flagrr c t|\}}t|\} }tj|tj| k(} t|rl|D cgc]} t | d} } t | \} }}}t | |Dcic] \}}| || }}}t | |Dcic] \}}| || }}}ndgdd}}} t |||||| ||| rtnd|rd yd ycc} wcc}}wcc}}w)z Coarsen a cooler to a lower resolution. Works by pooling *k*-by-*k* neighborhoods of pixels and aggregating. Each chromosomal block is coarsened individually. COOL_PATH : Path to a COOL file or Cooler URI. F)includes_colnumNcountaw) chunksizenproccolumnsdtypesaggrmode)roprealpathlenr ziprr)r factorrrfieldoutappendinfile_outfile same_fileargfield_specifiersrrrcoldtfs \/var/www/html/software/conda/envs/higlass/lib/python3.12/site-packages/cooler/cli/coarsen.pycoarsenr1 sp!*IFA!#&JGQ F#r{{7';;I 5zEJ >A c5 9  #&'7"8FC),Wf)=Pgc2#r'PP$'$5G&#qsAvGG!(y$  TDS !$  QGsC. C3C3+ C96C9)os.pathpathrclickparallelrreducerutilrr_utilr commandargumentoptionintstrr1r0rAs. ##$  K0  ?   )  5 I   L gtd1EF    ' %G1\%r@