diff --git a/.gitignore b/.gitignore index dfcfd56f..e69de29b 100644 --- a/.gitignore +++ b/.gitignore @@ -1,350 +0,0 @@ -## Ignore Visual Studio temporary files, build results, and -## files generated by popular Visual Studio add-ons. -## -## Get latest from https://github.com/github/gitignore/blob/master/VisualStudio.gitignore - -# User-specific files -*.rsuser -*.suo -*.user -*.userosscache -*.sln.docstates - -# User-specific files (MonoDevelop/Xamarin Studio) -*.userprefs - -# Mono auto generated files -mono_crash.* - -# Build results -[Dd]ebug/ -[Dd]ebugPublic/ -[Rr]elease/ -[Rr]eleases/ -x64/ -x86/ -[Aa][Rr][Mm]/ -[Aa][Rr][Mm]64/ -bld/ -[Bb]in/ -[Oo]bj/ -[Ll]og/ -[Ll]ogs/ - -# Visual Studio 2015/2017 cache/options directory -.vs/ -# Uncomment if you have tasks that create the project's static files in wwwroot -#wwwroot/ - -# Visual Studio 2017 auto generated files -Generated\ Files/ - -# MSTest test Results -[Tt]est[Rr]esult*/ -[Bb]uild[Ll]og.* - -# NUnit -*.VisualState.xml -TestResult.xml -nunit-*.xml - -# Build Results of an ATL Project -[Dd]ebugPS/ -[Rr]eleasePS/ -dlldata.c - -# Benchmark Results -BenchmarkDotNet.Artifacts/ - -# .NET Core -project.lock.json -project.fragment.lock.json -artifacts/ - -# StyleCop -StyleCopReport.xml - -# Files built by Visual Studio -*_i.c -*_p.c -*_h.h -*.ilk -*.meta -*.obj -*.iobj -*.pch -*.pdb -*.ipdb -*.pgc -*.pgd -*.rsp -*.sbr -*.tlb -*.tli -*.tlh -*.tmp -*.tmp_proj -*_wpftmp.csproj -*.log -*.vspscc -*.vssscc -.builds -*.pidb -*.svclog -*.scc - -# Chutzpah Test files -_Chutzpah* - -# Visual C++ cache files -ipch/ -*.aps -*.ncb -*.opendb -*.opensdf -*.sdf -*.cachefile -*.VC.db -*.VC.VC.opendb - -# Visual Studio profiler -*.psess -*.vsp -*.vspx -*.sap - -# Visual Studio Trace Files -*.e2e - -# TFS 2012 Local Workspace -$tf/ - -# Guidance Automation Toolkit -*.gpState - -# ReSharper is a .NET coding add-in -_ReSharper*/ -*.[Rr]e[Ss]harper -*.DotSettings.user - -# TeamCity is a build add-in -_TeamCity* - -# DotCover is a Code Coverage Tool -*.dotCover - -# AxoCover is a Code Coverage Tool -.axoCover/* -!.axoCover/settings.json - -# Visual Studio code coverage results -*.coverage -*.coveragexml - -# NCrunch -_NCrunch_* -.*crunch*.local.xml -nCrunchTemp_* - -# MightyMoose -*.mm.* -AutoTest.Net/ - -# Web workbench (sass) -.sass-cache/ - -# Installshield output folder -[Ee]xpress/ - -# DocProject is a documentation generator add-in -DocProject/buildhelp/ -DocProject/Help/*.HxT -DocProject/Help/*.HxC -DocProject/Help/*.hhc -DocProject/Help/*.hhk -DocProject/Help/*.hhp -DocProject/Help/Html2 -DocProject/Help/html - -# Click-Once directory -publish/ - -# Publish Web Output -*.[Pp]ublish.xml -*.azurePubxml -# Note: Comment the next line if you want to checkin your web deploy settings, -# but database connection strings (with potential passwords) will be unencrypted -*.pubxml -*.publishproj - -# Microsoft Azure Web App publish settings. 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Backup files are not needed, -# because we have git ;-) -_UpgradeReport_Files/ -Backup*/ -UpgradeLog*.XML -UpgradeLog*.htm -ServiceFabricBackup/ -*.rptproj.bak - -# SQL Server files -*.mdf -*.ldf -*.ndf - -# Business Intelligence projects -*.rdl.data -*.bim.layout -*.bim_*.settings -*.rptproj.rsuser -*- [Bb]ackup.rdl -*- [Bb]ackup ([0-9]).rdl -*- [Bb]ackup ([0-9][0-9]).rdl - -# Microsoft Fakes -FakesAssemblies/ - -# GhostDoc plugin setting file -*.GhostDoc.xml - -# Node.js Tools for Visual Studio -.ntvs_analysis.dat -node_modules/ - -# Visual Studio 6 build log -*.plg - -# Visual Studio 6 workspace options file -*.opt - -# Visual Studio 6 auto-generated workspace file (contains which files were open etc.) -*.vbw - -# Visual Studio LightSwitch build output -**/*.HTMLClient/GeneratedArtifacts -**/*.DesktopClient/GeneratedArtifacts -**/*.DesktopClient/ModelManifest.xml -**/*.Server/GeneratedArtifacts -**/*.Server/ModelManifest.xml -_Pvt_Extensions - -# Paket dependency manager -.paket/paket.exe -paket-files/ - -# FAKE - F# Make -.fake/ - -# CodeRush personal settings -.cr/personal - -# Python Tools for Visual Studio (PTVS) -__pycache__/ -*.pyc - -# Cake - Uncomment if you are using it -# tools/** -# !tools/packages.config - -# Tabs Studio -*.tss - -# Telerik's JustMock configuration file -*.jmconfig - -# BizTalk build output -*.btp.cs -*.btm.cs -*.odx.cs -*.xsd.cs - -# OpenCover UI analysis results -OpenCover/ - -# Azure Stream Analytics local run output -ASALocalRun/ - -# MSBuild Binary and Structured Log -*.binlog - -# NVidia Nsight GPU debugger configuration file -*.nvuser - -# MFractors (Xamarin productivity tool) working folder -.mfractor/ - -# Local History for Visual Studio -.localhistory/ - -# BeatPulse healthcheck temp database -healthchecksdb - -# Backup folder for Package Reference Convert tool in Visual Studio 2017 -MigrationBackup/ - -# Ionide (cross platform F# VS Code tools) working folder -.ionide/ diff --git a/0.download_data/README.md b/0.download_data/README.md new file mode 100644 index 00000000..1c5f71cf --- /dev/null +++ b/0.download_data/README.md @@ -0,0 +1,17 @@ +# Download Data + +In this module, we present our method for downloading nucleus morphology data. + +## Download/Process Data + +Complete instructions for data download and processing can be found at: https://github.com/WayScience/mitocheck_data + +## Usage + +In this repository, all training data is compiled from version controlled data from [mitocheck_data](https://github.com/WayScience/mitocheck_data) and used to create [training_data.csv.gz](../1.format_data/data/training_data.csv.gz). + +The version of mitocheck_data used is specified by the hash corresponding to a current commit. + +The current hash being used is `de21b9c3201ba4298db2b1704f3ae510a5dc47e2` which corresponds to [mitocheck_data/de21b9c](https://github.com/WayScience/mitocheck_data/tree/de21b9c3201ba4298db2b1704f3ae510a5dc47e2). + +The `hash` variable can be set in [format_training_data.ipynb](../1.format_data/format_training_data.ipynb) to changed which version of mitocheck_data is being accessed. \ No newline at end of file diff --git a/1.format_data/1.format_env.yml b/1.format_data/1.format_env.yml new file mode 100644 index 00000000..bf99a6de --- /dev/null +++ b/1.format_data/1.format_env.yml @@ -0,0 +1,7 @@ +name: 1.format_training_data +channels: + - conda-forge +dependencies: + - conda-forge::python=3.8.13 + - conda-forge::jupyter=1.0.0 + - conda-forge::pandas=1.4.2 diff --git a/1.format_data/1.format_trainind_data.sh b/1.format_data/1.format_trainind_data.sh new file mode 100644 index 00000000..a82fa98f --- /dev/null +++ b/1.format_data/1.format_trainind_data.sh @@ -0,0 +1,3 @@ +#!/bin/bash +jupyter nbconvert --to python format_training_data.ipynb +python format_training_data.py diff --git a/1.format_data/README.md b/1.format_data/README.md new file mode 100644 index 00000000..50755b51 --- /dev/null +++ b/1.format_data/README.md @@ -0,0 +1,31 @@ +# 1. Format Data + +In this module, we use data from a specific version of [mitocheck_data](https://github.com/WayScience/mitocheck_data) to compile a [training dataframe file](data/training_data.csv.gz). + +The [format training data script](format_training_data.ipynb) accesses the version of mitocheck_data to retrieve the preprocessed feature data, segmentation data, and trainingset.dat file. +With these data, the script is able to compile a dataframe with all labeled single-nuclei embeddings, their metadata, and their MitoCheck-assigned object ID/phenotypic class. + +**Note**: The version of mitocheck_data used to compile training data can be changed by setting the `hash` variable in the [format training data script](format_training_data.ipynb) to the desired commit of mitocheck_data. + +## Step 1: Setup Download Environment + +### Step 1a: Create Download Environment + +```sh +# Run this command to create the conda environment for downloading data +conda env create -f 1.format_env.yml +``` + +### Step 1b: Activate Download Environment + +```sh +# Run this command to activate the conda environment for downloading data +conda activate 1.format_training_data +``` + +## Step 2: Execute Training Data Preprocessing + +```bash +# Run this script to preprocess training movies +bash 1.format_trainind_data.sh +``` \ No newline at end of file diff --git a/1.format_data/data/training_data.csv.gz b/1.format_data/data/training_data.csv.gz new file mode 100644 index 00000000..e9d33304 Binary files /dev/null and b/1.format_data/data/training_data.csv.gz differ diff --git a/1.format_data/format_training_data.ipynb b/1.format_data/format_training_data.ipynb new file mode 100644 index 00000000..6cd60f80 --- /dev/null +++ b/1.format_data/format_training_data.ipynb @@ -0,0 +1,4785 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "# Format Training Data\n", + "\n", + "### Access training data from specific commit of [mitocheck_data](https://github.com/WayScience/mitocheck_data) and format this data into a single CSV file\n", + "\n", + "### Import libraries" + ] + }, + { + "cell_type": "code", + "execution_count": 1, + "metadata": {}, + "outputs": [], + "source": [ + "import pandas as pd\n", + "import urllib\n", + "import pathlib" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Define functions for formatting training data" + ] + }, + { + "cell_type": "code", + "execution_count": 2, + "metadata": {}, + "outputs": [], + "source": [ + "def get_single_cell_metadata(single_cell_data: pd.DataFrame):\n", + " \"\"\"get plate, well, frame information from single cell data\n", + "\n", + " Args:\n", + " single_cell_data (pd.Dataframe): dataframe with single cell data\n", + "\n", + " Returns:\n", + " str, str, str: plate, well, frame metadata as strings\n", + " \"\"\"\n", + " # Metadata_DNA is in format plate/well/frame/filename.tif so get plate, well, frame info from this\n", + " single_cell_info = single_cell_data[\"Metadata_DNA\"].split(\"/\")\n", + " plate = single_cell_info[0]\n", + " well = single_cell_info[1]\n", + " frame = single_cell_info[2]\n", + " return plate, well, frame\n", + "\n", + "\n", + "def get_cell_class(\n", + " single_cell_data: pd.DataFrame,\n", + " trainingset_file_url: str,\n", + " plate: str,\n", + " well: str,\n", + " frame: str,\n", + ") -> str:\n", + " \"\"\"get phenotypic class of cell from trainingset.dat file, as labeled by MitoCheck\n", + "\n", + " Args:\n", + " single_cell_data (pd.DataFrame): dataframe with single cell data\n", + " trainingset_file_url (str): url location of raw traininset.dat file\n", + " plate (str): plate cell is from\n", + " well (str): well cell is from\n", + " frame (str): frame cell is from\n", + "\n", + " Returns:\n", + " str: phenotypic class of nucleus, as labeled by MitoCheck\n", + " \"\"\"\n", + " well_string = f\"W{str(well).zfill(5)}\"\n", + " frame_time = (int(frame) - 1) * 30\n", + " frame_time_string = f\"T{str(frame_time).zfill(5)}\"\n", + " frame_file_details = [plate, well_string, frame_time_string]\n", + " obj_id = int(single_cell_data[\"Mitocheck_Object_ID\"].item())\n", + " obj_id_prefix = f\"{obj_id}: \"\n", + "\n", + " append = False\n", + " # need to open trainingset file each time\n", + " trainingset_file = urllib.request.urlopen(trainingset_file_url)\n", + " for line in trainingset_file:\n", + " decoded_line = line.decode(\"utf-8\").strip()\n", + " # match plate, well, frame to starting line for movie labels\n", + " if all(detail in decoded_line for detail in frame_file_details):\n", + " append = True\n", + " if append and decoded_line.startswith(obj_id_prefix):\n", + " return decoded_line.split(\": \")[1]\n", + " return None\n", + "\n", + "\n", + "def complete_single_cell(\n", + " single_cell_data: pd.DataFrame,\n", + " trainingset_file_url: str,\n", + " segmentation_data_dir: str,\n", + ") -> pd.DataFrame:\n", + " \"\"\"Add Mitocheck_Object_ID and Mitocheck_Phenotypic_Class fields to single cell data by matching cell object ID to phenotypic class given in traininset.dat\n", + "\n", + " Args:\n", + " single_cell_data (pd.DataFrame): single cell data\n", + " trainingset_file_url (str): url location of raw traininset.dat file\n", + " segmentation_data_dir (str): url location of the raw segmentation data directory\n", + "\n", + " Returns:\n", + " pd.DataFrame: completed single cell data\n", + " \"\"\"\n", + " plate, well, frame = get_single_cell_metadata(single_cell_data)\n", + " segmentation_data_url = (\n", + " f\"{segmentation_data_dir}/{plate}/{well}/{frame}/{plate}_{well}_{frame}.tsv\"\n", + " )\n", + " full_segmentation_data = pd.read_csv(segmentation_data_url, delimiter=\"\\t\").round(0)\n", + " cell_x_y = (\n", + " round(single_cell_data[\"Location_Center_X\"]),\n", + " round(single_cell_data[\"Location_Center_Y\"]),\n", + " )\n", + " cell_segmentation_data = full_segmentation_data.loc[\n", + " (full_segmentation_data[\"Location_Center_X\"] == cell_x_y[0])\n", + " & (full_segmentation_data[\"Location_Center_Y\"] == cell_x_y[1])\n", + " ]\n", + " print(f\"Processed cell at: {plate}/{well}/{frame}, location: {cell_x_y}\")\n", + " if cell_segmentation_data.empty:\n", + " print(\"No segmentation data match found for this cell!\")\n", + " else:\n", + " single_cell_data = single_cell_data.to_frame().transpose()\n", + " single_cell_data.insert(\n", + " 0,\n", + " \"Mitocheck_Object_ID\",\n", + " cell_segmentation_data[\"Mitocheck_Object_ID\"].item(),\n", + " )\n", + " cell_phenotypic_class = get_cell_class(\n", + " single_cell_data, trainingset_file_url, plate, well, frame\n", + " )\n", + " if cell_phenotypic_class == None:\n", + " print(\"This cell was not found in trainingset.dat!\")\n", + " single_cell_data.insert(0, \"Mitocheck_Phenotypic_Class\", cell_phenotypic_class)\n", + "\n", + " return single_cell_data\n", + "\n", + "\n", + "def format_training_data(\n", + " mitocheck_data_version_url: str, save_path: pathlib.Path, compression: str\n", + ") -> pd.DataFrame:\n", + " \"\"\"Add Mitocheck_Object_ID and Mitocheck_Phenotypic_Class fields to each single cell and compile all the cells into a single training data dataframe\n", + "\n", + " Args:\n", + " mitocheck_data_version_url (str): url with path to desired version of raw mitocheck_data\n", + " save_path (pathlib.Path): path to save training data\n", + " compression (str): type of compression to use when saving dataframe\n", + "\n", + " Returns:\n", + " pd.DataFrame: completed training data with Mitocheck_Object_ID and Mitocheck_Phenotypic_Class for each cell\n", + " \"\"\"\n", + " trainingset_file_url = (\n", + " f\"{mitocheck_data_version_url}/0.download_data/trainingset.dat\"\n", + " )\n", + " segmentation_data_dir = f\"{mitocheck_data_version_url}/2.segment_nuclei/segmented/\"\n", + " preprocessed_features_url = f\"{mitocheck_data_version_url}/4.preprocess_features/data/normalized_training_data.csv.gz\"\n", + "\n", + " preprocessed_features = pd.read_csv(preprocessed_features_url, compression=\"gzip\")\n", + " print(\"Loaded preprocessed features!\")\n", + "\n", + " training_data = []\n", + " for index, row in preprocessed_features.iterrows():\n", + " single_cell = row\n", + " completed_single_cell = complete_single_cell(\n", + " single_cell, trainingset_file_url, segmentation_data_dir\n", + " )\n", + " training_data.append(completed_single_cell)\n", + "\n", + " training_data = pd.concat(training_data)\n", + " training_data.to_csv(save_path, compression=compression)\n", + " return training_data" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Format training data" + ] + }, + { + "cell_type": "code", + "execution_count": 3, + "metadata": {}, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "Loaded preprocessed features!\n", + "Processed cell at: LT0043_48/166/48, location: (263, 20)\n", + "Processed cell at: LT0043_48/166/48, location: (240, 28)\n", + "Processed cell at: LT0043_48/166/48, location: (253, 36)\n", + "Processed cell at: LT0043_48/166/48, location: (258, 46)\n", + "Processed cell at: LT0043_48/166/55, location: (1213, 21)\n", + "Processed cell at: LT0043_48/166/55, location: (70, 105)\n", + "Processed cell at: LT0043_48/166/55, location: (517, 159)\n", + "Processed cell at: LT0043_48/166/55, location: (1156, 191)\n", + "Processed cell at: LT0043_48/166/55, location: (748, 221)\n", + "Processed cell at: LT0043_48/166/55, location: (795, 243)\n", + "Processed cell at: LT0043_48/166/55, location: (744, 236)\n", + "Processed cell at: LT0043_48/166/55, location: (719, 246)\n", + "Processed cell at: LT0043_48/166/55, location: (668, 253)\n", + "Processed cell at: LT0043_48/166/55, location: (522, 252)\n", + "Processed cell at: LT0043_48/166/55, location: (644, 256)\n", + "Processed cell at: 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location: (602, 130)\n", + "Processed cell at: LT0030_17/184/46, location: (603, 147)\n", + "Processed cell at: LT0030_17/184/46, location: (120, 158)\n", + "Processed cell at: LT0030_17/184/46, location: (355, 153)\n", + "Processed cell at: LT0030_17/184/46, location: (352, 168)\n", + "Processed cell at: LT0030_17/184/46, location: (384, 271)\n", + "Processed cell at: LT0030_17/184/46, location: (391, 283)\n", + "Processed cell at: LT0030_17/184/46, location: (1106, 583)\n", + "Processed cell at: LT0030_17/184/46, location: (1056, 593)\n", + "Processed cell at: LT0030_17/184/46, location: (438, 592)\n", + "Processed cell at: LT0030_17/184/46, location: (457, 619)\n", + "Processed cell at: LT0030_17/184/46, location: (650, 836)\n", + "Processed cell at: LT0030_17/184/87, location: (143, 227)\n", + "Processed cell at: LT0030_17/184/87, location: (130, 238)\n", + "Processed cell at: LT0030_17/184/87, location: (500, 256)\n", + "Processed cell at: LT0030_17/184/87, location: (138, 251)\n", + "Processed cell at: LT0030_17/184/87, location: (487, 263)\n", + "Processed cell at: LT0030_17/184/87, location: (145, 349)\n", + "Processed cell at: LT0030_17/184/87, location: (148, 363)\n", + "Processed cell at: LT0030_17/184/87, location: (210, 653)\n", + "Processed cell at: LT0030_17/184/87, location: (216, 664)\n", + "Processed cell at: LT0030_17/184/87, location: (68, 664)\n", + "Processed cell at: LT0030_17/184/87, location: (57, 675)\n", + "Processed cell at: LT0030_17/184/87, location: (256, 677)\n", + "Processed cell at: LT0030_17/184/87, location: (253, 691)\n", + "Processed cell at: LT0030_17/184/87, location: (80, 720)\n", + "Processed cell at: LT0030_17/184/87, location: (95, 721)\n", + "Processed cell at: LT0030_17/184/87, location: (81, 734)\n", + "Processed cell at: LT0030_17/184/50, location: (124, 159)\n", + "Processed cell at: LT0030_17/184/50, location: (166, 204)\n", + "Processed cell at: LT0030_17/184/50, location: (636, 199)\n", + "Processed cell at: LT0030_17/184/50, location: (249, 277)\n", + "Processed cell at: LT0030_17/184/50, location: (1159, 502)\n", + "Processed cell at: LT0030_17/184/50, location: (1096, 513)\n", + "Processed cell at: LT0030_17/184/50, location: (1065, 568)\n", + "Processed cell at: LT0030_17/184/50, location: (412, 660)\n", + "Processed cell at: LT0030_17/184/50, location: (440, 679)\n", + "Processed cell at: LT0030_17/184/50, location: (709, 729)\n", + "Processed cell at: LT0030_17/184/39, location: (490, 49)\n", + "Processed cell at: LT0030_17/184/39, location: (463, 67)\n", + "Processed cell at: LT0030_17/184/39, location: (488, 72)\n", + "Processed cell at: LT0030_17/184/39, location: (513, 90)\n", + "Processed cell at: LT0030_17/184/39, location: (608, 142)\n", + "Processed cell at: LT0030_17/184/39, location: (591, 143)\n", + "Processed cell at: LT0030_17/184/39, location: (121, 159)\n", + "Processed cell at: LT0030_17/184/39, location: (166, 200)\n", + "Processed cell at: LT0030_17/184/39, location: (631, 202)\n", + "Processed cell at: LT0030_17/184/39, location: (183, 205)\n", + "Processed cell at: LT0030_17/184/39, location: (167, 219)\n", + "Processed cell at: LT0030_17/184/39, location: (369, 268)\n", + "Processed cell at: LT0030_17/184/39, location: (384, 273)\n", + "Processed cell at: LT0030_17/184/39, location: (744, 336)\n", + "Processed cell at: LT0030_17/184/39, location: (771, 380)\n", + "Processed cell at: LT0030_17/184/39, location: (983, 400)\n", + "Processed cell at: LT0030_17/184/39, location: (794, 441)\n", + "Processed cell at: LT0030_17/184/39, location: (800, 495)\n", + "Processed cell at: LT0030_17/184/39, location: (1112, 502)\n", + "Processed cell at: LT0030_17/184/39, location: (1095, 530)\n", + "Processed cell at: LT0030_17/184/39, location: (1106, 536)\n", + "Processed cell at: LT0030_17/184/39, location: (1082, 553)\n", + "Processed cell at: LT0030_17/184/39, location: (1066, 570)\n", + "Processed cell at: LT0030_17/184/39, location: (1096, 581)\n", + "Processed cell at: LT0030_17/184/39, location: (323, 623)\n", + "Processed cell at: LT0030_17/184/39, location: (368, 894)\n", + "Processed cell at: LT0030_17/184/39, location: (348, 934)\n", + "Processed cell at: LT0030_17/184/39, location: (438, 931)\n", + "Processed cell at: LT0101_01/277/74, location: (829, 498)\n", + "Processed cell at: LT0101_01/277/74, location: (789, 590)\n", + "Processed cell at: LT0101_01/277/74, location: (789, 648)\n", + "Processed cell at: LT0101_01/277/74, location: (722, 686)\n", + "Processed cell at: LT0101_01/277/74, location: (739, 723)\n", + "Processed cell at: LT0101_01/277/74, location: (1069, 822)\n", + "Processed cell at: LT0101_01/277/74, location: (1058, 952)\n", + "Processed cell at: LT0101_01/277/79, location: (1182, 110)\n", + "Processed cell at: LT0101_01/277/79, location: (826, 500)\n", + "Processed cell at: LT0101_01/277/79, location: (705, 548)\n", + "Processed cell at: LT0101_01/277/79, location: (730, 557)\n", + "Processed cell at: LT0101_01/277/79, location: (811, 557)\n", + "Processed cell at: LT0101_01/277/79, location: (792, 591)\n", + "Processed cell at: LT0101_01/277/79, location: (792, 644)\n", + "Processed cell at: LT0101_01/277/79, location: (294, 760)\n", + "Processed cell at: LT0101_01/277/79, location: (1069, 822)\n", + "Processed cell at: LT0101_01/277/79, location: (1145, 822)\n", + "Processed cell at: LT0101_01/277/66, location: (620, 88)\n", + "Processed cell at: LT0101_01/277/66, location: (647, 107)\n", + "Processed cell at: LT0101_01/277/66, location: (657, 179)\n", + "Processed cell at: LT0101_01/277/66, location: (699, 180)\n", + "Processed cell at: LT0101_01/277/66, location: (540, 180)\n", + "Processed cell at: LT0101_01/277/66, location: (595, 183)\n", + "Processed cell at: LT0101_01/277/66, location: (497, 225)\n", + "Processed cell at: LT0101_01/277/66, location: (467, 246)\n", + "Processed cell at: LT0101_01/277/66, location: (498, 281)\n", + "Processed cell at: LT0101_01/277/66, location: (806, 371)\n", + "Processed cell at: LT0101_01/277/66, location: (963, 427)\n", + "Processed cell at: LT0101_01/277/66, location: (969, 439)\n", + "Processed cell at: LT0101_01/277/66, location: (968, 455)\n", + "Processed cell at: LT0101_01/277/66, location: (980, 463)\n", + "Processed cell at: LT0101_01/277/66, location: (753, 479)\n", + "Processed cell at: LT0101_01/277/66, location: (751, 493)\n", + "Processed cell at: LT0101_01/277/66, location: (826, 503)\n", + "Processed cell at: LT0101_01/277/66, location: (1260, 512)\n", + "Processed cell at: LT0101_01/277/66, location: (1260, 531)\n", + "Processed cell at: LT0101_01/277/66, location: (813, 557)\n", + "Processed cell at: LT0101_01/277/66, location: (1237, 581)\n", + "Processed cell at: LT0101_01/277/66, location: (1262, 594)\n", + "Processed cell at: LT0101_01/277/66, location: (785, 592)\n", + "Processed cell at: LT0101_01/277/66, location: (1070, 648)\n", + "Processed cell at: LT0101_01/277/66, location: (1050, 664)\n", + "Processed cell at: LT0101_01/277/66, location: (716, 687)\n", + "Processed cell at: LT0101_01/277/66, location: (737, 721)\n", + "Processed cell at: LT0101_01/277/66, location: (588, 728)\n", + "Processed cell at: LT0101_01/277/66, location: (583, 746)\n", + "Processed cell at: LT0101_01/277/66, location: (1099, 782)\n", + "Processed cell at: LT0101_01/277/66, location: (1143, 823)\n", + "Processed cell at: LT0101_01/277/66, location: (1199, 865)\n", + "Processed cell at: LT0101_01/277/66, location: (1246, 891)\n", + "Processed cell at: LT0101_01/277/66, location: (1153, 916)\n", + "Processed cell at: LT0144_01/166/27, location: (835, 343)\n", + "Processed cell at: LT0144_01/166/27, location: (901, 374)\n", + "Processed cell at: LT0144_01/166/27, location: (874, 378)\n", + "Processed cell at: LT0144_01/166/27, location: (853, 458)\n", + "Processed cell at: LT0144_01/166/27, location: (504, 476)\n", + "Processed cell at: LT0144_01/166/27, location: (641, 485)\n", + "Processed cell at: LT0144_01/166/27, location: (624, 508)\n", + "Processed cell at: LT0144_01/166/27, location: (663, 555)\n", + "Processed cell at: LT0144_01/166/27, location: (635, 583)\n", + "Processed cell at: LT0144_01/166/27, location: (668, 587)\n", + "Processed cell at: LT0144_01/166/27, location: (970, 820)\n", + "Processed cell at: LT0144_01/166/34, location: (852, 454)\n", + "Processed cell at: LT0144_01/166/34, location: (918, 521)\n", + "Processed cell at: LT0144_01/166/34, location: (912, 620)\n", + "Processed cell at: LT0144_01/166/34, location: (881, 619)\n", + "Processed cell at: LT0144_01/166/34, location: (949, 854)\n", + "Processed cell at: LT0144_01/166/50, location: (984, 268)\n", + "Processed cell at: LT0144_01/166/50, location: (1062, 379)\n", + "Processed cell at: LT0144_01/166/50, location: (833, 485)\n", + "Processed cell at: LT0094_44/319/74, location: (662, 12)\n", + "Processed cell at: LT0094_44/319/74, location: (639, 22)\n", + "Processed cell at: LT0094_44/319/74, location: (626, 52)\n", + "Processed cell at: LT0094_44/319/74, location: (642, 75)\n", + "Processed cell at: LT0094_44/319/74, location: (1000, 459)\n", + "Processed cell at: LT0094_44/319/74, location: (822, 748)\n", + "Processed cell at: LT0094_44/319/57, location: (611, 734)\n", + "Processed cell at: LT0094_44/319/57, location: (789, 737)\n", + "Processed cell at: LT0094_44/319/57, location: (620, 745)\n", + "Processed cell at: LT0094_44/319/57, location: (809, 899)\n", + "Processed cell at: LT0094_44/319/57, location: (800, 924)\n", + "Processed cell at: LT0094_44/319/57, location: (792, 932)\n", + "Processed cell at: LT0023_04/005/72, location: (291, 93)\n", + "Processed cell at: LT0023_04/005/72, location: (298, 123)\n", + "Processed cell at: LT0023_04/005/72, location: (904, 208)\n", + "Processed cell at: LT0023_04/005/72, location: (878, 213)\n", + "Processed cell at: LT0023_04/005/72, location: (83, 253)\n", + "Processed cell at: LT0023_04/005/72, location: (112, 251)\n", + "Processed cell at: LT0023_04/005/72, location: (133, 267)\n", + "Processed cell at: LT0023_04/005/72, location: (685, 388)\n", + "Processed cell at: LT0023_04/005/72, location: (325, 611)\n", + "Processed cell at: LT0023_04/005/72, location: (518, 621)\n", + "Processed cell at: LT0023_04/005/72, location: (334, 625)\n", + "Processed cell at: LT0023_04/005/72, location: (517, 638)\n", + "Processed cell at: LT0023_04/005/72, location: (338, 646)\n", + "Processed cell at: LT0023_04/005/72, location: (540, 648)\n", + "Processed cell at: LT0023_04/005/72, location: (572, 666)\n", + "Processed cell at: LT0023_04/005/72, location: (546, 673)\n", + "Processed cell at: LT0023_04/005/72, location: (341, 678)\n", + "Processed cell at: LT0023_04/005/72, location: (576, 683)\n", + "Processed cell at: LT0023_04/005/72, location: (567, 692)\n", + "Processed cell at: LT0023_04/005/8, location: (872, 460)\n", + "Processed cell at: LT0023_04/005/8, location: (762, 515)\n", + "Processed cell at: LT0023_04/005/30, location: (87, 229)\n", + "Processed cell at: LT0023_04/005/30, location: (61, 242)\n", + "Processed cell at: LT0023_04/005/30, location: (1062, 269)\n", + "Processed cell at: LT0023_04/005/30, location: (666, 308)\n", + "Processed cell at: LT0023_04/005/30, location: (664, 332)\n", + "Processed cell at: LT0023_04/005/30, location: (215, 461)\n", + "Processed cell at: LT0023_04/005/30, location: (716, 471)\n", + "Processed cell at: LT0023_04/005/30, location: (711, 496)\n", + "Processed cell at: LT0023_04/005/30, location: (369, 541)\n", + "Processed cell at: LT0023_04/005/30, location: (118, 596)\n", + "Processed cell at: LT0023_04/005/30, location: (61, 597)\n", + "Processed cell at: LT0023_04/005/30, location: (310, 639)\n", + "Processed cell at: LT0023_04/005/30, location: (332, 653)\n", + "Processed cell at: LT0023_04/005/30, location: (1178, 684)\n", + "Processed cell at: LT0023_04/005/30, location: (545, 858)\n", + "Processed cell at: LT0023_04/005/30, location: (1115, 884)\n", + "Processed cell at: LT0023_04/005/30, location: (1128, 892)\n", + "Processed cell at: LT0023_04/005/7, location: (412, 224)\n", + "Processed cell at: LT0023_04/005/7, location: (721, 471)\n", + "Processed cell at: LT0023_04/005/7, location: (721, 500)\n", + "Processed cell at: LT0023_04/005/7, location: (458, 630)\n", + "Processed cell at: LT0023_04/005/51, location: (695, 483)\n", + "Processed cell at: LT0023_04/005/51, location: (476, 584)\n", + "Processed cell at: LT0023_04/005/51, location: (499, 603)\n", + "Processed cell at: LT0023_04/005/51, location: (312, 631)\n", + "Processed cell at: LT0023_04/005/51, location: (327, 647)\n", + "Processed cell at: LT0023_04/005/51, location: (502, 663)\n", + "Processed cell at: LT0023_04/005/51, location: (320, 672)\n", + "Processed cell at: LT0023_04/005/64, location: (671, 457)\n", + "Processed cell at: LT0023_04/005/64, location: (699, 475)\n", + "Processed cell at: LT0023_04/005/64, location: (1054, 477)\n", + "Processed cell at: LT0023_04/005/64, location: (665, 480)\n", + "Processed cell at: LT0023_04/005/64, location: (696, 490)\n", + "Processed cell at: LT0023_04/005/64, location: (684, 497)\n", + "Processed cell at: LT0023_04/005/64, location: (502, 582)\n", + "Processed cell at: LT0023_04/005/64, location: (309, 599)\n", + "Processed cell at: LT0023_04/005/64, location: (331, 619)\n", + "Processed cell at: LT0023_04/005/64, location: (266, 632)\n", + "Processed cell at: LT0023_04/005/64, location: (334, 639)\n", + "Processed cell at: LT0023_04/005/64, location: (240, 644)\n", + "Processed cell at: LT0023_04/005/64, location: (528, 661)\n", + "Processed cell at: LT0023_04/005/64, location: (329, 659)\n", + "Processed cell at: LT0023_04/005/64, location: (331, 673)\n", + "Processed cell at: LT0023_04/005/64, location: (554, 686)\n", + "Processed cell at: LT0023_04/005/64, location: (1291, 975)\n", + "Processed cell at: LT0023_04/005/87, location: (291, 84)\n", + "Processed cell at: LT0023_04/005/87, location: (296, 103)\n", + "Processed cell at: LT0023_04/005/87, location: (304, 115)\n", + "Processed cell at: LT0023_04/005/87, location: (292, 127)\n", + "Processed cell at: LT0023_04/005/87, location: (394, 253)\n", + "Processed cell at: LT0023_04/005/87, location: (99, 262)\n", + "Processed cell at: LT0023_04/005/87, location: (122, 265)\n", + "Processed cell at: LT0023_04/005/87, location: (405, 280)\n", + "Processed cell at: LT0023_04/005/87, location: (138, 280)\n", + "Processed cell at: LT0023_04/005/87, location: (343, 282)\n", + "Processed cell at: LT0023_04/005/87, location: (328, 305)\n", + "Processed cell at: LT0023_04/005/87, location: (158, 337)\n", + "Processed cell at: LT0023_04/005/87, location: (345, 358)\n", + "Processed cell at: LT0023_04/005/87, location: (368, 357)\n", + "Processed cell at: LT0023_04/005/87, location: (392, 362)\n", + "Processed cell at: LT0023_04/005/87, location: (155, 497)\n", + "Processed cell at: LT0023_04/005/87, location: (193, 563)\n", + "Processed cell at: LT0023_04/005/87, location: (216, 581)\n", + "Processed cell at: LT0023_04/005/87, location: (877, 591)\n", + "Processed cell at: LT0023_04/005/87, location: (901, 593)\n", + "Processed cell at: LT0023_04/005/87, location: (270, 603)\n", + "Processed cell at: LT0023_04/005/87, location: (902, 611)\n", + "Processed cell at: LT0023_04/005/87, location: (326, 624)\n", + "Processed cell at: LT0023_04/005/87, location: (331, 645)\n", + "Processed cell at: LT0023_04/005/87, location: (799, 661)\n", + "Processed cell at: LT0023_04/005/87, location: (333, 670)\n", + "Processed cell at: LT0023_04/005/87, location: (997, 675)\n", + "Processed cell at: LT0023_04/005/87, location: (977, 686)\n", + "Processed cell at: LT0023_04/005/87, location: (333, 684)\n", + "Processed cell at: LT0023_04/005/87, location: (989, 710)\n", + "Processed cell at: LT0023_04/005/87, location: (967, 726)\n", + "Processed cell at: LT0023_04/005/87, location: (487, 770)\n", + "Processed cell at: LT0023_04/005/87, location: (1196, 818)\n", + "Processed cell at: LT0023_04/005/87, location: (1196, 837)\n", + "Processed cell at: LT0023_04/005/87, location: (1183, 847)\n", + "Processed cell at: LT0023_04/005/87, location: (69, 854)\n", + "Processed cell at: LT0023_04/005/87, location: (42, 864)\n", + "Processed cell at: LT0023_04/005/87, location: (37, 890)\n", + "Processed cell at: LT0023_04/005/87, location: (853, 936)\n", + "Processed cell at: LT0023_04/005/87, location: (839, 962)\n", + "Processed cell at: LT0023_04/005/87, location: (522, 969)\n", + "Processed cell at: LT0023_04/005/87, location: (366, 969)\n", + "Processed cell at: LT0023_04/005/87, location: (529, 995)\n", + "Processed cell at: LT0023_04/005/50, location: (705, 211)\n", + "Processed cell at: LT0023_04/005/50, location: (702, 482)\n", + "Processed cell at: LT0023_04/005/50, location: (476, 587)\n", + "Processed cell at: LT0023_04/005/50, location: (500, 596)\n", 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"Processed cell at: LT0038_01/245/81, location: (452, 522)\n", + "Processed cell at: LT0038_01/245/81, location: (718, 540)\n", + "Processed cell at: LT0038_01/245/81, location: (633, 721)\n", + "Processed cell at: LT0014_12/159/93, location: (725, 176)\n", + "Processed cell at: LT0014_12/159/93, location: (730, 196)\n", + "Processed cell at: LT0014_12/159/93, location: (715, 210)\n", + "Processed cell at: LT0014_12/159/93, location: (252, 376)\n", + "Processed cell at: LT0014_12/159/93, location: (692, 398)\n", + "Processed cell at: LT0014_12/159/93, location: (172, 401)\n", + "Processed cell at: LT0014_12/159/93, location: (641, 515)\n", + "Processed cell at: LT0014_12/159/93, location: (546, 522)\n", + "Processed cell at: LT0014_12/159/93, location: (577, 536)\n", + "Processed cell at: LT0014_12/159/93, location: (179, 709)\n", + "Processed cell at: LT0014_12/159/93, location: (88, 716)\n", + "Processed cell at: LT0014_12/159/93, location: (132, 805)\n", + "Processed cell at: 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location: (845, 682)\n", + "Processed cell at: LT0014_12/159/70, location: (906, 690)\n", + "Processed cell at: LT0014_12/159/70, location: (920, 687)\n", + "Processed cell at: LT0014_12/159/70, location: (854, 690)\n", + "Processed cell at: LT0014_12/159/70, location: (838, 703)\n", + "Processed cell at: LT0014_12/159/70, location: (923, 702)\n", + "Processed cell at: LT0014_12/159/70, location: (23, 718)\n", + "Processed cell at: LT0014_12/159/70, location: (777, 733)\n", + "Processed cell at: LT0014_12/159/70, location: (775, 751)\n", + "Processed cell at: LT0014_12/159/70, location: (765, 770)\n", + "Processed cell at: LT0014_12/159/70, location: (356, 799)\n", + "Processed cell at: LT0014_12/159/70, location: (779, 798)\n", + "Processed cell at: LT0014_12/159/70, location: (794, 805)\n", + "Processed cell at: LT0014_12/159/70, location: (787, 822)\n", + "Processed cell at: LT0014_12/159/70, location: (363, 825)\n", + "Processed cell at: LT0014_12/159/70, location: (362, 847)\n", + "Processed cell at: LT0014_12/159/70, location: (1270, 854)\n", + "Processed cell at: LT0014_12/159/70, location: (311, 864)\n", + "Processed cell at: LT0014_12/159/70, location: (1252, 869)\n", + "Processed cell at: LT0014_12/159/70, location: (1273, 878)\n", + "Processed cell at: LT0014_12/159/70, location: (1208, 878)\n", + "Processed cell at: LT0014_12/159/70, location: (118, 883)\n", + "Processed cell at: LT0014_12/159/70, location: (308, 881)\n", + "Processed cell at: LT0014_12/159/70, location: (322, 897)\n", + "Processed cell at: LT0014_12/159/70, location: (1288, 917)\n", + "Processed cell at: LT0014_12/159/70, location: (723, 932)\n", + "Processed cell at: LT0014_12/159/70, location: (389, 937)\n", + "Processed cell at: LT0014_12/159/70, location: (688, 937)\n", + "Processed cell at: LT0014_12/159/70, location: (684, 972)\n", + "Processed cell at: LT0014_12/159/70, location: (711, 979)\n", + "Processed cell at: LT0014_12/159/70, location: (336, 996)\n", + "Processed cell at: 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875)\n", + "Processed cell at: LT0014_12/159/59, location: (108, 880)\n", + "Processed cell at: LT0014_12/159/59, location: (90, 911)\n", + "Processed cell at: LT0014_12/159/59, location: (552, 1002)\n", + "Processed cell at: LT0028_14/129/55, location: (695, 71)\n", + "Processed cell at: LT0028_14/129/55, location: (716, 84)\n", + "Processed cell at: LT0028_14/129/55, location: (695, 110)\n", + "Processed cell at: LT0028_14/129/55, location: (719, 122)\n", + "Processed cell at: LT0028_14/129/55, location: (814, 212)\n", + "Processed cell at: LT0028_14/129/55, location: (797, 231)\n", + "Processed cell at: LT0028_14/129/55, location: (674, 242)\n", + "Processed cell at: LT0028_14/129/55, location: (809, 248)\n", + "Processed cell at: LT0028_14/129/55, location: (792, 251)\n", + "Processed cell at: LT0028_14/129/55, location: (689, 254)\n", + "Processed cell at: LT0028_14/129/55, location: (659, 258)\n", + "Processed cell at: LT0028_14/129/55, location: (694, 268)\n", + "Processed cell 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location: (832, 375)\n", + "Processed cell at: LT0066_19/287/93, location: (827, 392)\n", + "Processed cell at: LT0066_19/287/93, location: (803, 390)\n", + "Processed cell at: LT0066_19/287/93, location: (594, 487)\n", + "Processed cell at: LT0066_19/287/93, location: (190, 483)\n", + "Processed cell at: LT0066_19/287/93, location: (205, 489)\n", + "Processed cell at: LT0066_19/287/93, location: (571, 489)\n", + "Processed cell at: LT0066_19/287/93, location: (193, 498)\n", + "Processed cell at: LT0066_19/287/93, location: (586, 501)\n", + "Processed cell at: LT0066_19/287/93, location: (220, 497)\n", + "Processed cell at: LT0066_19/287/93, location: (563, 503)\n", + "Processed cell at: LT0066_19/287/93, location: (211, 506)\n", + "Processed cell at: LT0066_19/287/93, location: (226, 507)\n", + "Processed cell at: LT0066_19/287/93, location: (197, 513)\n", + "Processed cell at: LT0066_19/287/93, location: (540, 512)\n", + "Processed cell at: LT0066_19/287/93, location: (217, 519)\n", 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444)\n", + "Processed cell at: LT0066_19/287/14, location: (1061, 558)\n", + "Processed cell at: LT0066_19/287/14, location: (292, 572)\n", + "Processed cell at: LT0066_19/287/14, location: (1052, 570)\n", + "Processed cell at: LT0066_19/287/14, location: (1090, 596)\n", + "Processed cell at: LT0066_19/287/14, location: (545, 601)\n", + "Processed cell at: LT0066_19/287/14, location: (594, 610)\n", + "Processed cell at: LT0066_19/287/14, location: (1123, 641)\n", + "Processed cell at: LT0066_19/287/14, location: (1285, 696)\n", + "Processed cell at: LT0066_19/287/14, location: (1280, 744)\n", + "Processed cell at: LT0066_19/287/14, location: (1204, 800)\n", + "Processed cell at: LT0066_19/287/14, location: (1241, 855)\n", + "Processed cell at: LT0066_19/287/75, location: (699, 144)\n", + "Processed cell at: LT0066_19/287/75, location: (715, 147)\n", + "Processed cell at: LT0066_19/287/75, location: (685, 159)\n", + "Processed cell at: LT0066_19/287/75, location: (710, 159)\n", + 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"Processed cell at: LT0089_01/175/93, location: (876, 365)\n", + "Processed cell at: LT0089_01/175/93, location: (770, 375)\n", + "Processed cell at: LT0089_01/175/93, location: (895, 376)\n", + "Processed cell at: LT0089_01/175/93, location: (487, 374)\n", + "Processed cell at: LT0089_01/175/93, location: (264, 398)\n", + "Processed cell at: LT0089_01/175/93, location: (283, 394)\n", + "Processed cell at: LT0089_01/175/93, location: (690, 400)\n", + "Processed cell at: LT0089_01/175/93, location: (291, 410)\n", + "Processed cell at: LT0089_01/175/93, location: (168, 422)\n", + "Processed cell at: LT0089_01/175/93, location: (673, 420)\n", + "Processed cell at: LT0089_01/175/93, location: (145, 423)\n", + "Processed cell at: LT0089_01/175/93, location: (175, 440)\n", + "Processed cell at: LT0089_01/175/93, location: (160, 450)\n", + "Processed cell at: LT0089_01/175/93, location: (180, 460)\n", + "Processed cell at: LT0089_01/175/93, location: (241, 479)\n", + "Processed cell at: 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700)\n", + "Processed cell at: LT0132_31/053/75, location: (769, 704)\n", + "Processed cell at: LT0132_31/053/75, location: (779, 716)\n", + "Processed cell at: LT0132_31/053/63, location: (1195, 226)\n", + "Processed cell at: LT0132_31/053/63, location: (597, 272)\n", + "Processed cell at: LT0132_31/053/63, location: (1246, 273)\n", + "Processed cell at: LT0132_31/053/63, location: (487, 278)\n", + "Processed cell at: LT0132_31/053/63, location: (1197, 276)\n", + "Processed cell at: LT0132_31/053/63, location: (606, 315)\n", + "Processed cell at: LT0132_31/053/63, location: (518, 360)\n", + "Processed cell at: LT0132_31/053/63, location: (632, 363)\n", + "Processed cell at: LT0132_31/053/63, location: (546, 402)\n", + "Processed cell at: LT0132_31/053/63, location: (774, 446)\n", + "Processed cell at: LT0132_31/053/63, location: (223, 574)\n", + "Processed cell at: LT0132_31/053/63, location: (256, 614)\n", + "Processed cell at: LT0132_31/053/63, location: (489, 763)\n", + "Processed cell at: LT0132_31/053/63, location: (500, 805)\n", + "Processed cell at: LT0132_31/053/63, location: (242, 905)\n", + "Processed cell at: LT0132_31/053/63, location: (153, 922)\n", + "Processed cell at: LT0132_31/053/63, location: (576, 949)\n", + "Processed cell at: LT0132_31/053/63, location: (706, 1006)\n", + "Processed cell at: LT0132_31/053/33, location: (638, 276)\n", + "Processed cell at: LT0132_31/053/33, location: (678, 286)\n", + "Processed cell at: LT0132_31/053/33, location: (351, 426)\n", + "Processed cell at: LT0132_31/053/33, location: (347, 474)\n", + "Processed cell at: LT0132_31/053/37, location: (673, 281)\n", + "Processed cell at: LT0132_31/053/37, location: (607, 314)\n", + "Processed cell at: LT0132_31/053/37, location: (638, 355)\n", + "Processed cell at: LT0132_31/053/37, location: (348, 424)\n", + "Processed cell at: LT0132_31/053/37, location: (506, 806)\n", + "Processed cell at: LT0066_23/163/51, location: (400, 581)\n", + "Processed cell at: 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694)\n", + "Processed cell at: LT0048_14/335/1, location: (609, 746)\n", + "Processed cell at: LT0048_14/335/1, location: (241, 809)\n", + "Processed cell at: LT0048_14/335/1, location: (284, 823)\n", + "Processed cell at: LT0048_14/335/1, location: (419, 875)\n", + "Processed cell at: LT0048_14/335/1, location: (264, 903)\n", + "Processed cell at: LT0048_14/335/1, location: (593, 902)\n", + "Processed cell at: LT0048_14/335/1, location: (500, 931)\n", + "Processed cell at: LT0048_14/335/1, location: (271, 940)\n", + "Processed cell at: LT0048_14/335/1, location: (454, 951)\n", + "Processed cell at: LT0048_14/335/1, location: (490, 974)\n", + "Processed cell at: LT0048_14/335/56, location: (918, 48)\n", + "Processed cell at: LT0048_14/335/56, location: (1227, 77)\n", + "Processed cell at: LT0048_14/335/56, location: (1169, 90)\n", + "Processed cell at: LT0048_14/335/56, location: (1250, 95)\n", + "Processed cell at: LT0048_14/335/56, location: (528, 123)\n", + "Processed cell at: 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"Processed cell at: LT0048_14/335/29, location: (171, 431)\n", + "Processed cell at: LT0048_14/335/29, location: (789, 500)\n", + "Processed cell at: LT0048_14/335/29, location: (482, 543)\n", + "Processed cell at: LT0048_14/335/29, location: (478, 548)\n", + "Processed cell at: LT0048_14/335/29, location: (813, 579)\n", + "Processed cell at: LT0048_14/335/29, location: (476, 566)\n", + "Processed cell at: LT0048_14/335/29, location: (458, 612)\n", + "Processed cell at: LT0048_14/335/29, location: (383, 617)\n", + "Processed cell at: LT0048_14/335/29, location: (334, 641)\n", + "Processed cell at: LT0048_14/335/29, location: (733, 685)\n", + "Processed cell at: LT0048_14/335/29, location: (726, 699)\n", + "Processed cell at: LT0048_14/335/29, location: (617, 740)\n", + "Processed cell at: LT0048_14/335/29, location: (248, 792)\n", + "Processed cell at: LT0048_14/335/29, location: (284, 827)\n", + "Processed cell at: LT0048_14/335/29, location: (536, 849)\n", + "Processed cell at: 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(285, 380)\n", + "Processed cell at: LT0098_13/021/21, location: (618, 377)\n", + "Processed cell at: LT0098_13/021/21, location: (629, 383)\n", + "Processed cell at: LT0098_13/021/21, location: (245, 414)\n", + "Processed cell at: LT0098_13/021/21, location: (335, 418)\n", + "Processed cell at: LT0098_13/021/21, location: (824, 502)\n", + "Processed cell at: LT0098_13/021/21, location: (838, 517)\n", + "Processed cell at: LT0098_13/021/21, location: (865, 522)\n", + "Processed cell at: LT0098_13/021/21, location: (301, 555)\n", + "Processed cell at: LT0098_13/021/21, location: (401, 563)\n", + "Processed cell at: LT0098_13/021/21, location: (1240, 608)\n", + "Processed cell at: LT0098_13/021/21, location: (1011, 654)\n", + "Processed cell at: LT0098_13/021/21, location: (138, 687)\n", + "Processed cell at: LT0098_13/021/21, location: (540, 892)\n", + "Processed cell at: LT0098_13/021/21, location: (539, 929)\n", + "Processed cell at: LT0098_13/021/21, location: (824, 948)\n", + "Processed cell at: LT0098_13/021/21, location: (368, 960)\n", + "Processed cell at: LT0098_13/021/27, location: (550, 262)\n", + "Processed cell at: LT0098_13/021/27, location: (511, 262)\n", + "Processed cell at: LT0098_13/021/27, location: (511, 276)\n", + "Processed cell at: LT0098_13/021/27, location: (555, 280)\n", + "Processed cell at: LT0098_13/021/27, location: (618, 377)\n", + "Processed cell at: LT0098_13/021/27, location: (638, 379)\n", + "Processed cell at: LT0098_13/021/27, location: (1249, 603)\n", + "Processed cell at: LT0098_13/021/77, location: (891, 52)\n", + "Processed cell at: LT0098_13/021/77, location: (1009, 77)\n", + "Processed cell at: LT0098_13/021/77, location: (938, 85)\n", + "Processed cell at: LT0098_13/021/77, location: (884, 98)\n", + "Processed cell at: LT0098_13/021/77, location: (1033, 95)\n", + "Processed cell at: LT0098_13/021/77, location: (910, 99)\n", + "Processed cell at: LT0098_13/021/77, location: (736, 173)\n", + "Processed cell at: 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location: (1121, 352)\n", + "Processed cell at: LT0013_38/042/47, location: (1267, 365)\n", + "Processed cell at: LT0013_38/042/47, location: (1288, 364)\n", + "Processed cell at: LT0013_38/042/47, location: (1301, 371)\n", + "Processed cell at: LT0013_38/042/47, location: (1110, 373)\n", + "Processed cell at: LT0013_38/042/47, location: (1268, 382)\n", + "Processed cell at: LT0013_38/042/47, location: (1292, 385)\n", + "Processed cell at: LT0013_38/042/47, location: (1043, 696)\n", + "Processed cell at: LT0013_38/042/47, location: (1044, 720)\n", + "Processed cell at: LT0013_38/042/47, location: (1047, 788)\n", + "Processed cell at: LT0013_38/042/47, location: (1171, 804)\n", + "Processed cell at: LT0013_38/042/47, location: (1150, 805)\n", + "Processed cell at: LT0013_38/042/47, location: (1059, 810)\n", + "Processed cell at: LT0013_38/042/47, location: (1139, 824)\n", + "Processed cell at: LT0013_38/042/47, location: (1163, 837)\n", + "Processed cell at: LT0013_38/042/47, location: (1144, 846)\n", + "Processed cell at: LT0013_38/042/47, location: (390, 853)\n", + "Processed cell at: LT0013_38/042/47, location: (576, 874)\n", + "Processed cell at: LT0013_38/042/47, location: (391, 879)\n", + "Processed cell at: LT0013_38/042/47, location: (595, 893)\n", + "Processed cell at: LT0013_38/042/75, location: (480, 125)\n", + "Processed cell at: LT0013_38/042/75, location: (543, 113)\n", + "Processed cell at: LT0013_38/042/75, location: (541, 138)\n", + "Processed cell at: LT0013_38/042/75, location: (400, 152)\n", + "Processed cell at: LT0013_38/042/75, location: (376, 167)\n", + "Processed cell at: LT0013_38/042/75, location: (97, 158)\n", + "Processed cell at: LT0013_38/042/75, location: (70, 166)\n", + "Processed cell at: LT0013_38/042/75, location: (401, 182)\n", + "Processed cell at: LT0013_38/042/75, location: (94, 178)\n", + "Processed cell at: LT0013_38/042/75, location: (1152, 186)\n", + "Processed cell at: LT0013_38/042/75, location: (72, 182)\n", + "Processed 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LT0013_38/042/75, location: (1263, 403)\n", + "Processed cell at: LT0013_38/042/75, location: (200, 411)\n", + "Processed cell at: LT0013_38/042/75, location: (395, 408)\n", + "Processed cell at: LT0013_38/042/75, location: (384, 426)\n", + "Processed cell at: LT0013_38/042/75, location: (342, 430)\n", + "Processed cell at: LT0013_38/042/75, location: (326, 448)\n", + "Processed cell at: LT0013_38/042/75, location: (300, 472)\n", + "Processed cell at: LT0013_38/042/75, location: (282, 490)\n", + "Processed cell at: LT0013_38/042/75, location: (303, 493)\n", + "Processed cell at: LT0013_38/042/75, location: (346, 500)\n", + "Processed cell at: LT0013_38/042/75, location: (1109, 498)\n", + "Processed cell at: LT0013_38/042/75, location: (1096, 511)\n", + "Processed cell at: LT0013_38/042/75, location: (336, 513)\n", + "Processed cell at: LT0013_38/042/75, location: (1115, 516)\n", + "Processed cell at: LT0013_38/042/75, location: (737, 521)\n", + "Processed cell at: LT0013_38/042/75, location: (1138, 529)\n", + "Processed cell at: LT0013_38/042/75, location: (933, 546)\n", + "Processed cell at: LT0013_38/042/75, location: (740, 544)\n", + "Processed cell at: LT0013_38/042/75, location: (486, 559)\n", + "Processed cell at: LT0013_38/042/75, location: (808, 588)\n", + "Processed cell at: LT0013_38/042/75, location: (827, 604)\n", + "Processed cell at: LT0013_38/042/75, location: (706, 717)\n", + "Processed cell at: LT0013_38/042/75, location: (725, 723)\n", + "Processed cell at: LT0013_38/042/75, location: (700, 745)\n", + "Processed cell at: LT0013_38/042/75, location: (389, 760)\n", + "Processed cell at: LT0013_38/042/75, location: (414, 763)\n", + "Processed cell at: LT0013_38/042/75, location: (1132, 829)\n", + "Processed cell at: LT0013_38/042/75, location: (1151, 841)\n", + "Processed cell at: LT0013_38/042/75, location: (1120, 844)\n", + "Processed cell at: LT0013_38/042/75, location: (1136, 866)\n", + "Processed cell at: LT0013_38/042/75, location: (384, 864)\n", + "Processed cell at: LT0013_38/042/75, location: (1117, 865)\n", + "Processed cell at: LT0013_38/042/75, location: (1292, 871)\n", + "Processed cell at: LT0013_38/042/75, location: (1306, 888)\n", + "Processed cell at: LT0013_38/042/75, location: (381, 887)\n", + "Processed cell at: LT0013_38/042/75, location: (1218, 909)\n", + "Processed cell at: LT0013_38/042/75, location: (1196, 919)\n", + "Processed cell at: LT0013_38/042/75, location: (742, 945)\n", + "Processed cell at: LT0013_38/042/75, location: (769, 954)\n", + "Processed cell at: LT0013_38/042/75, location: (670, 958)\n", + "Processed cell at: LT0013_38/042/75, location: (682, 978)\n", + "Processed cell at: LT0041_32/132/68, location: (704, 195)\n", + "Processed cell at: LT0041_32/132/68, location: (692, 281)\n", + "Processed cell at: LT0041_32/132/68, location: (646, 299)\n", + "Processed cell at: LT0041_32/132/68, location: (999, 799)\n", + "Processed cell at: LT0041_32/132/68, location: (447, 846)\n", + "Processed cell at: LT0041_32/132/74, location: (989, 123)\n", + "Processed cell at: LT0041_32/132/74, location: (902, 158)\n", + "Processed cell at: LT0041_32/132/74, location: (970, 175)\n", + "Processed cell at: LT0041_32/132/74, location: (703, 191)\n", + "Processed cell at: LT0041_32/132/74, location: (957, 184)\n", + "Processed cell at: LT0041_32/132/74, location: (627, 243)\n", + "Processed cell at: LT0041_32/132/74, location: (694, 270)\n", + "Processed cell at: LT0041_32/132/74, location: (656, 429)\n", + "Processed cell at: LT0041_32/132/74, location: (974, 544)\n", + "Processed cell at: LT0041_32/132/74, location: (959, 551)\n", + "Processed cell at: LT0041_32/132/74, location: (150, 616)\n", + "Processed cell at: LT0041_32/132/74, location: (1030, 663)\n", + "Processed cell at: LT0041_32/132/65, location: (994, 133)\n", + "Processed cell at: LT0041_32/132/65, location: (700, 199)\n", + "Processed cell at: LT0041_32/132/65, location: (690, 279)\n", + "Processed cell at: LT0038_08/250/80, location: (769, 312)\n", + "Processed cell at: LT0038_08/250/80, location: (780, 323)\n", + "Processed cell at: LT0038_08/250/80, location: (789, 330)\n", + "Processed cell at: LT0038_08/250/80, location: (772, 340)\n", + "Processed cell at: LT0038_08/250/54, location: (931, 17)\n", + "Processed cell at: LT0038_08/250/54, location: (875, 96)\n", + "Processed cell at: LT0038_08/250/54, location: (802, 105)\n", + "Processed cell at: LT0038_08/250/54, location: (787, 129)\n", + "Processed cell at: LT0038_08/250/54, location: (435, 176)\n", + "Processed cell at: LT0038_08/250/54, location: (402, 180)\n", + "Processed cell at: LT0038_08/250/54, location: (967, 228)\n", + "Processed cell at: LT0038_08/250/54, location: (158, 477)\n", + "Processed cell at: LT0038_08/250/54, location: (314, 514)\n", + "Processed cell at: LT0038_08/250/54, location: (1047, 589)\n", + "Processed cell at: LT0038_08/250/54, location: (548, 597)\n", + "Processed cell at: LT0038_08/250/54, location: (778, 654)\n", + "Processed cell at: LT0038_08/250/54, location: (1232, 882)\n", + "Processed cell at: LT0038_08/250/54, location: (1206, 890)\n", + "Processed cell at: LT0038_08/250/54, location: (1231, 909)\n", + "Processed cell at: LT0157_04/005/2, location: (1248, 309)\n", + "Processed cell at: LT0157_04/005/2, location: (725, 518)\n", + "Processed cell at: LT0157_04/005/2, location: (444, 546)\n", + "Processed cell at: LT0157_04/005/2, location: (709, 565)\n", + "Processed cell at: LT0157_04/005/2, location: (1081, 673)\n", + "Processed cell at: LT0157_04/005/2, location: (1110, 681)\n", + "Processed cell at: LT0157_04/005/2, location: (1119, 700)\n", + "Processed cell at: LT0157_04/005/2, location: (631, 727)\n", + "Processed cell at: LT0157_04/005/2, location: (368, 724)\n", + "Processed cell at: LT0157_04/005/2, location: (356, 722)\n", + "Processed cell at: LT0157_04/005/2, location: (1253, 766)\n", + "Processed cell at: LT0157_04/005/2, location: (351, 813)\n", + "Processed cell at: LT0157_04/005/2, location: (436, 920)\n", + "Processed cell at: LT0157_04/005/47, location: (1035, 21)\n", + "Processed cell at: LT0157_04/005/47, location: (1059, 34)\n", + "Processed cell at: LT0157_04/005/47, location: (330, 357)\n", + "Processed cell at: LT0157_04/005/47, location: (963, 360)\n", + "Processed cell at: LT0157_04/005/47, location: (313, 374)\n", + "Processed cell at: LT0157_04/005/47, location: (968, 385)\n", + "Processed cell at: LT0157_04/005/47, location: (843, 404)\n", + "Processed cell at: LT0157_04/005/47, location: (975, 410)\n", + "Processed cell at: LT0157_04/005/47, location: (856, 417)\n", + "Processed cell at: LT0157_04/005/47, location: (851, 433)\n", + "Processed cell at: LT0157_04/005/47, location: (653, 509)\n", + "Processed cell at: LT0157_04/005/47, location: (634, 527)\n", + "Processed cell at: LT0157_04/005/47, location: (618, 518)\n", + "Processed cell at: LT0157_04/005/47, location: (411, 576)\n", + "Processed cell at: 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location: (334, 948)\n", + "Processed cell at: LT0157_04/005/47, location: (1279, 941)\n", + "Processed cell at: LT0157_04/005/47, location: (1265, 952)\n", + "Processed cell at: LT0157_04/005/47, location: (1294, 948)\n", + "Processed cell at: LT0157_04/005/47, location: (27, 959)\n", + "Processed cell at: LT0157_04/005/47, location: (344, 961)\n", + "Processed cell at: LT0157_04/005/47, location: (1286, 958)\n", + "Processed cell at: LT0157_04/005/47, location: (1302, 959)\n", + "Processed cell at: LT0157_04/005/47, location: (50, 958)\n", + "Processed cell at: LT0157_04/005/47, location: (36, 965)\n", + "Processed cell at: LT0157_04/005/47, location: (311, 967)\n", + "Processed cell at: LT0157_04/005/47, location: (31, 976)\n", + "Processed cell at: LT0157_04/005/47, location: (18, 981)\n", + "Processed cell at: LT0157_04/005/78, location: (753, 203)\n", + "Processed cell at: LT0157_04/005/78, location: (780, 214)\n", + "Processed cell at: LT0157_04/005/78, location: (758, 224)\n", + "Processed cell at: LT0157_04/005/78, location: (925, 328)\n", + "Processed cell at: LT0157_04/005/78, location: (938, 338)\n", + "Processed cell at: LT0157_04/005/78, location: (925, 343)\n", + "Processed cell at: LT0157_04/005/78, location: (951, 355)\n", + "Processed cell at: LT0157_04/005/78, location: (934, 357)\n", + "Processed cell at: LT0157_04/005/78, location: (944, 373)\n", + "Processed cell at: LT0157_04/005/78, location: (824, 405)\n", + "Processed cell at: LT0157_04/005/78, location: (837, 400)\n", + "Processed cell at: LT0157_04/005/78, location: (843, 414)\n", + "Processed cell at: LT0157_04/005/78, location: (844, 426)\n", + "Processed cell at: LT0157_04/005/78, location: (824, 433)\n", + "Processed cell at: LT0157_04/005/78, location: (841, 443)\n", + "Processed cell at: LT0157_04/005/78, location: (829, 450)\n", + "Processed cell at: LT0157_04/005/78, location: (613, 492)\n", + "Processed cell at: LT0157_04/005/78, location: (626, 490)\n", + "Processed cell at: 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location: (315, 923)\n", + "Processed cell at: LT0157_04/005/78, location: (645, 926)\n", + "Processed cell at: LT0157_04/005/78, location: (751, 931)\n", + "Processed cell at: LT0157_04/005/78, location: (1289, 920)\n", + "Processed cell at: LT0157_04/005/78, location: (1310, 924)\n", + "Processed cell at: LT0157_04/005/78, location: (1193, 931)\n", + "Processed cell at: LT0157_04/005/78, location: (330, 935)\n", + "Processed cell at: LT0157_04/005/78, location: (1319, 934)\n", + "Processed cell at: LT0157_04/005/78, location: (1305, 936)\n", + "Processed cell at: LT0157_04/005/78, location: (316, 941)\n", + "Processed cell at: LT0157_04/005/78, location: (765, 945)\n", + "Processed cell at: LT0157_04/005/78, location: (656, 946)\n", + "Processed cell at: LT0157_04/005/78, location: (1181, 951)\n", + "Processed cell at: LT0157_04/005/78, location: (335, 954)\n", + "Processed cell at: LT0157_04/005/61, location: (764, 202)\n", + "Processed cell at: LT0157_04/005/61, location: (753, 219)\n", + "Processed cell at: LT0157_04/005/61, location: (1031, 237)\n", + "Processed cell at: LT0157_04/005/61, location: (816, 244)\n", + "Processed cell at: LT0157_04/005/61, location: (811, 261)\n", + "Processed cell at: LT0157_04/005/61, location: (1022, 255)\n", + "Processed cell at: LT0157_04/005/61, location: (833, 267)\n", + "Processed cell at: LT0157_04/005/61, location: (505, 291)\n", + "Processed cell at: LT0157_04/005/61, location: (529, 293)\n", + "Processed cell at: LT0157_04/005/61, location: (941, 347)\n", + "Processed cell at: LT0157_04/005/61, location: (324, 349)\n", + "Processed cell at: LT0157_04/005/61, location: (303, 369)\n", + "Processed cell at: LT0157_04/005/61, location: (939, 360)\n", + "Processed cell at: LT0157_04/005/61, location: (951, 374)\n", + "Processed cell at: LT0157_04/005/61, location: (837, 401)\n", + "Processed cell at: LT0157_04/005/61, location: (959, 405)\n", + "Processed cell at: LT0157_04/005/61, location: (844, 415)\n", + "Processed 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(289, 549)\n", + "Processed cell at: LT0157_04/005/17, location: (297, 568)\n", + "Processed cell at: LT0157_04/005/17, location: (280, 591)\n", + "Processed cell at: LT0157_04/005/17, location: (276, 673)\n", + "Processed cell at: LT0157_04/005/17, location: (279, 690)\n", + "Processed cell at: LT0157_04/005/17, location: (265, 702)\n", + "Processed cell at: LT0157_04/005/17, location: (542, 847)\n", + "Processed cell at: LT0157_04/005/17, location: (498, 903)\n", + "Processed cell at: LT0065_04/020/72, location: (377, 118)\n", + "Processed cell at: LT0065_04/020/72, location: (357, 131)\n", + "Processed cell at: LT0065_04/020/72, location: (867, 176)\n", + "Processed cell at: LT0065_04/020/72, location: (850, 188)\n", + "Processed cell at: LT0065_04/020/72, location: (871, 190)\n", + "Processed cell at: LT0065_04/020/72, location: (856, 203)\n", + "Processed cell at: LT0065_04/020/72, location: (243, 292)\n", + "Processed cell at: LT0065_04/020/72, location: (226, 312)\n", + "Processed cell at: LT0065_04/020/72, location: (817, 347)\n", + "Processed cell at: LT0065_04/020/72, location: (797, 361)\n", + "Processed cell at: LT0065_04/020/72, location: (835, 368)\n", + "Processed cell at: LT0065_04/020/72, location: (819, 382)\n", + "Processed cell at: LT0065_04/020/72, location: (782, 396)\n", + "Processed cell at: LT0065_04/020/72, location: (811, 391)\n", + "Processed cell at: LT0065_04/020/72, location: (830, 404)\n", + "Processed cell at: LT0065_04/020/72, location: (800, 468)\n", + "Processed cell at: LT0065_04/020/72, location: (172, 475)\n", + "Processed cell at: LT0065_04/020/72, location: (123, 475)\n", + "Processed cell at: LT0065_04/020/72, location: (140, 485)\n", + "Processed cell at: LT0065_04/020/72, location: (747, 485)\n", + "Processed cell at: LT0065_04/020/72, location: (764, 483)\n", + "Processed cell at: LT0065_04/020/72, location: (781, 496)\n", + "Processed cell at: LT0065_04/020/72, location: (796, 501)\n", + "Processed cell at: 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location: (758, 477)\n", + "Processed cell at: LT0065_04/020/49, location: (772, 486)\n", + "Processed cell at: LT0065_04/020/49, location: (797, 493)\n", + "Processed cell at: LT0065_04/020/49, location: (775, 501)\n", + "Processed cell at: LT0065_04/020/49, location: (992, 775)\n", + "Processed cell at: LT0065_04/020/49, location: (1017, 795)\n", + "Processed cell at: LT0065_04/020/49, location: (977, 805)\n", + "Processed cell at: LT0065_04/020/49, location: (997, 824)\n", + "Processed cell at: LT0065_04/020/49, location: (569, 861)\n", + "Processed cell at: LT0065_04/020/49, location: (590, 888)\n", + "Processed cell at: LT0065_04/020/49, location: (557, 895)\n", + "Processed cell at: LT0065_04/020/49, location: (119, 952)\n", + "Processed cell at: LT0065_04/020/57, location: (883, 223)\n", + "Processed cell at: LT0065_04/020/57, location: (900, 244)\n", + "Processed cell at: LT0065_04/020/57, location: (985, 371)\n", + "Processed cell at: LT0065_04/020/57, location: (783, 376)\n", 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location: (854, 350)\n", + "Processed cell at: LT0065_04/020/92, location: (1001, 357)\n", + "Processed cell at: LT0065_04/020/92, location: (969, 358)\n", + "Processed cell at: LT0065_04/020/92, location: (830, 364)\n", + "Processed cell at: LT0065_04/020/92, location: (979, 372)\n", + "Processed cell at: LT0065_04/020/92, location: (849, 380)\n", + "Processed cell at: LT0065_04/020/92, location: (827, 377)\n", + "Processed cell at: LT0065_04/020/92, location: (843, 448)\n", + "Processed cell at: LT0065_04/020/92, location: (860, 444)\n", + "Processed cell at: LT0065_04/020/92, location: (854, 465)\n", + "Processed cell at: LT0065_04/020/92, location: (759, 475)\n", + "Processed cell at: LT0065_04/020/92, location: (777, 466)\n", + "Processed cell at: LT0065_04/020/92, location: (783, 477)\n", + "Processed cell at: LT0065_04/020/92, location: (199, 481)\n", + "Processed cell at: LT0065_04/020/92, location: (176, 488)\n", + "Processed cell at: LT0065_04/020/92, location: (158, 492)\n", 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location: (980, 196)\n", + "Processed cell at: LT0013_42/107/52, location: (617, 230)\n", + "Processed cell at: LT0013_42/107/52, location: (607, 244)\n", + "Processed cell at: LT0013_42/107/52, location: (594, 256)\n", + "Processed cell at: LT0013_42/107/52, location: (982, 249)\n", + "Processed cell at: LT0013_42/107/52, location: (982, 259)\n", + "Processed cell at: LT0013_42/107/52, location: (64, 286)\n", + "Processed cell at: LT0013_42/107/52, location: (81, 303)\n", + "Processed cell at: LT0013_42/107/52, location: (834, 430)\n", + "Processed cell at: LT0013_42/107/52, location: (823, 452)\n", + "Processed cell at: LT0013_42/107/52, location: (1277, 481)\n", + "Processed cell at: LT0013_42/107/52, location: (45, 519)\n", + "Processed cell at: LT0013_42/107/52, location: (1060, 549)\n", + "Processed cell at: LT0013_42/107/52, location: (1076, 565)\n", + "Processed cell at: LT0013_42/107/52, location: (1055, 568)\n", + "Processed cell at: LT0013_42/107/52, location: (398, 582)\n", 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location: (1295, 195)\n", + "Processed cell at: LT0013_42/107/76, location: (1315, 198)\n", + "Processed cell at: LT0013_42/107/76, location: (692, 200)\n", + "Processed cell at: LT0013_42/107/76, location: (1252, 213)\n", + "Processed cell at: LT0013_42/107/76, location: (1327, 216)\n", + "Processed cell at: LT0013_42/107/76, location: (1303, 213)\n", + "Processed cell at: LT0013_42/107/76, location: (676, 217)\n", + "Processed cell at: LT0013_42/107/76, location: (608, 227)\n", + "Processed cell at: LT0013_42/107/76, location: (1314, 234)\n", + "Processed cell at: LT0013_42/107/76, location: (592, 246)\n", + "Processed cell at: LT0013_42/107/76, location: (621, 255)\n", + "Processed cell at: LT0013_42/107/76, location: (989, 257)\n", + "Processed cell at: LT0013_42/107/76, location: (986, 277)\n", + "Processed cell at: LT0013_42/107/76, location: (65, 292)\n", + "Processed cell at: LT0013_42/107/76, location: (88, 312)\n", + "Processed cell at: LT0013_42/107/76, location: (124, 365)\n", + "Processed cell at: LT0013_42/107/76, location: (172, 367)\n", + "Processed cell at: LT0013_42/107/76, location: (1032, 435)\n", + "Processed cell at: LT0013_42/107/76, location: (100, 458)\n", + "Processed cell at: LT0013_42/107/76, location: (1261, 467)\n", + "Processed cell at: LT0013_42/107/76, location: (1283, 480)\n", + "Processed cell at: LT0013_42/107/76, location: (960, 508)\n", + "Processed cell at: LT0013_42/107/76, location: (49, 520)\n", + "Processed cell at: LT0013_42/107/76, location: (153, 521)\n", + "Processed cell at: LT0013_42/107/76, location: (1043, 564)\n", + "Processed cell at: LT0013_42/107/76, location: (1066, 576)\n", + "Processed cell at: LT0013_42/107/76, location: (188, 579)\n", + "Processed cell at: LT0013_42/107/76, location: (1045, 584)\n", + "Processed cell at: LT0013_42/107/76, location: (493, 691)\n", + "Processed cell at: LT0013_42/107/76, location: (272, 700)\n", + "Processed cell at: LT0013_42/107/76, location: (291, 708)\n", + "Processed cell at: LT0013_42/107/76, location: (279, 728)\n", + "Processed cell at: LT0013_42/107/76, location: (501, 804)\n", + "Processed cell at: LT0013_42/107/76, location: (1251, 889)\n", + "Processed cell at: LT0013_42/107/76, location: (266, 934)\n", + "Processed cell at: LT0013_42/107/76, location: (1302, 936)\n", + "Processed cell at: LT0013_42/107/76, location: (285, 939)\n", + "Processed cell at: LT0013_42/107/76, location: (276, 957)\n", + "Processed cell at: LT0013_42/107/76, location: (316, 1002)\n", + "Processed cell at: LT0013_42/107/76, location: (338, 1003)\n", + "Processed cell at: LT0013_42/107/28, location: (959, 130)\n", + "Processed cell at: LT0013_42/107/28, location: (848, 130)\n", + "Processed cell at: LT0013_42/107/28, location: (982, 138)\n", + "Processed cell at: LT0013_42/107/28, location: (912, 133)\n", + "Processed cell at: LT0013_42/107/28, location: (1257, 149)\n", + "Processed cell at: LT0013_42/107/28, location: (457, 155)\n", + "Processed cell at: 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location: (750, 548)\n", + "Processed cell at: LT0013_42/107/28, location: (893, 566)\n", + "Processed cell at: LT0013_42/107/28, location: (401, 576)\n", + "Processed cell at: LT0013_42/107/28, location: (411, 596)\n", + "Processed cell at: LT0013_42/107/28, location: (893, 591)\n", + "Processed cell at: LT0013_42/107/28, location: (152, 628)\n", + "Processed cell at: LT0013_42/107/28, location: (1177, 671)\n", + "Processed cell at: LT0013_42/107/28, location: (190, 762)\n", + "Processed cell at: LT0013_42/107/28, location: (165, 767)\n", + "Processed cell at: LT0013_42/107/28, location: (118, 987)\n", + "Processed cell at: LT0013_42/107/28, location: (107, 1004)\n", + "Processed cell at: LT0094_01/319/36, location: (971, 478)\n", + "Processed cell at: LT0094_01/319/36, location: (629, 487)\n", + "Processed cell at: LT0094_01/319/36, location: (686, 499)\n", + "Processed cell at: LT0094_01/319/36, location: (1008, 580)\n", + "Processed cell at: LT0094_01/319/36, location: (448, 734)\n", + "Processed cell at: LT0094_01/319/36, location: (315, 801)\n", + "Processed cell at: LT0094_01/319/36, location: (882, 918)\n", + "Processed cell at: LT0094_01/319/38, location: (1068, 25)\n", + "Processed cell at: LT0094_01/319/38, location: (485, 107)\n", + "Processed cell at: LT0094_01/319/38, location: (981, 558)\n", + "Processed cell at: LT0094_01/319/38, location: (951, 957)\n", + "Processed cell at: LT0094_01/319/60, location: (1036, 54)\n", + "Processed cell at: LT0094_01/319/60, location: (135, 258)\n", + "Processed cell at: LT0094_01/319/60, location: (1048, 473)\n", + "Processed cell at: LT0094_01/319/60, location: (979, 553)\n", + "Processed cell at: LT0094_01/319/60, location: (1037, 580)\n", + "Processed cell at: LT0094_01/319/60, location: (1009, 583)\n", + "Processed cell at: LT0094_01/319/60, location: (1015, 658)\n", + "Processed cell at: LT0094_01/319/60, location: (213, 986)\n", + "Processed cell at: LT0094_01/319/34, location: (511, 113)\n", + "Processed 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LT0094_01/319/85, location: (955, 587)\n", + "Processed cell at: LT0094_01/319/85, location: (508, 671)\n", + "Processed cell at: LT0094_01/319/85, location: (1210, 686)\n", + "Processed cell at: LT0094_01/319/85, location: (513, 698)\n", + "Processed cell at: LT0094_01/319/46, location: (1068, 25)\n", + "Processed cell at: LT0094_01/319/46, location: (376, 110)\n", + "Processed cell at: LT0094_01/319/46, location: (970, 473)\n", + "Processed cell at: LT0094_01/319/46, location: (1047, 474)\n", + "Processed cell at: LT0094_01/319/46, location: (628, 485)\n", + "Processed cell at: LT0094_01/319/66, location: (1067, 19)\n", + "Processed cell at: LT0094_01/319/66, location: (1038, 52)\n", + "Processed cell at: LT0094_01/319/66, location: (569, 346)\n", + "Processed cell at: LT0094_01/319/66, location: (624, 476)\n", + "Processed cell at: LT0094_01/319/66, location: (978, 553)\n", + "Processed cell at: LT0094_01/319/66, location: (1009, 581)\n", + "Processed cell at: LT0094_01/319/66, location: (1015, 655)\n", + "Processed cell at: LT0094_01/319/66, location: (234, 687)\n", + "Processed cell at: LT0094_01/319/66, location: (281, 712)\n", + "Processed cell at: LT0094_01/319/66, location: (1145, 765)\n", + "Processed cell at: LT0094_01/319/66, location: (502, 920)\n", + "Processed cell at: LT0100_03/093/37, location: (208, 131)\n", + "Processed cell at: LT0100_03/093/37, location: (188, 150)\n", + "Processed cell at: LT0100_03/093/37, location: (519, 149)\n", + "Processed cell at: LT0100_03/093/37, location: (654, 174)\n", + "Processed cell at: LT0100_03/093/37, location: (586, 200)\n", + "Processed cell at: LT0100_03/093/37, location: (572, 216)\n", + "Processed cell at: LT0100_03/093/37, location: (584, 226)\n", + "Processed cell at: LT0100_03/093/37, location: (1164, 233)\n", + "Processed cell at: LT0100_03/093/37, location: (1040, 240)\n", + "Processed cell at: LT0100_03/093/37, location: (62, 250)\n", + "Processed cell at: LT0100_03/093/37, location: (108, 254)\n", + "Processed cell at: LT0100_03/093/37, location: (1064, 250)\n", + "Processed cell at: LT0100_03/093/37, location: (1041, 254)\n", + "Processed cell at: LT0100_03/093/37, location: (115, 283)\n", + "Processed cell at: LT0100_03/093/37, location: (1161, 309)\n", + "Processed cell at: LT0100_03/093/37, location: (789, 422)\n", + "Processed cell at: LT0100_03/093/37, location: (49, 477)\n", + "Processed cell at: LT0100_03/093/37, location: (53, 515)\n", + "Processed cell at: LT0100_03/093/37, location: (47, 534)\n", + "Processed cell at: LT0100_03/093/37, location: (1221, 550)\n", + "Processed cell at: LT0100_03/093/37, location: (1279, 547)\n", + "Processed cell at: LT0100_03/093/37, location: (790, 558)\n", + "Processed cell at: LT0100_03/093/37, location: (779, 571)\n", + "Processed cell at: LT0100_03/093/37, location: (1065, 627)\n", + "Processed cell at: LT0100_03/093/37, location: (1065, 644)\n", + "Processed cell at: LT0100_03/093/37, location: (1089, 649)\n", + "Processed cell at: LT0100_03/093/37, location: (193, 669)\n", + "Processed cell at: LT0100_03/093/37, location: (1079, 665)\n", + "Processed cell at: LT0100_03/093/37, location: (740, 672)\n", + "Processed cell at: LT0100_03/093/37, location: (760, 680)\n", + "Processed cell at: LT0100_03/093/37, location: (1316, 680)\n", + "Processed cell at: LT0100_03/093/37, location: (1301, 691)\n", + "Processed cell at: LT0100_03/093/37, location: (1315, 700)\n", + "Processed cell at: LT0100_03/093/37, location: (277, 828)\n", + "Processed cell at: LT0100_03/093/37, location: (339, 857)\n", + "Processed cell at: LT0044_36/249/61, location: (1161, 51)\n", + "Processed cell at: LT0044_36/249/61, location: (801, 420)\n", + "Processed cell at: LT0044_36/249/61, location: (795, 435)\n", + "Processed cell at: LT0044_36/249/46, location: (1151, 88)\n", + "Processed cell at: LT0044_36/249/46, location: (158, 245)\n", + "Processed cell at: LT0044_36/249/46, location: (133, 251)\n", + "Processed cell at: 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location: (223, 362)\n", + "Processed cell at: LT0035_06/274/21, location: (96, 365)\n", + "Processed cell at: LT0035_06/274/21, location: (449, 368)\n", + "Processed cell at: LT0035_06/274/21, location: (269, 372)\n", + "Processed cell at: LT0035_06/274/21, location: (501, 393)\n", + "Processed cell at: LT0035_06/274/21, location: (781, 432)\n", + "Processed cell at: LT0035_06/274/21, location: (310, 433)\n", + "Processed cell at: LT0035_06/274/21, location: (807, 481)\n", + "Processed cell at: LT0035_06/274/21, location: (685, 614)\n", + "Processed cell at: LT0035_06/274/21, location: (742, 637)\n", + "Processed cell at: LT0035_06/274/4, location: (556, 366)\n", + "Processed cell at: LT0035_06/274/4, location: (392, 420)\n", + "Processed cell at: LT0035_06/274/4, location: (458, 572)\n", + "Processed cell at: LT0035_06/274/4, location: (493, 587)\n", + "Processed cell at: LT0035_06/274/4, location: (770, 604)\n", + "Processed cell at: LT0035_06/274/4, location: (455, 869)\n", + "Processed cell at: LT0035_06/274/40, location: (772, 135)\n", + "Processed cell at: LT0035_06/274/40, location: (539, 144)\n", + "Processed cell at: LT0035_06/274/40, location: (746, 182)\n", + "Processed cell at: LT0035_06/274/40, location: (1069, 243)\n", + "Processed cell at: LT0035_06/274/40, location: (1051, 282)\n", + "Processed cell at: LT0035_06/274/40, location: (311, 335)\n", + "Processed cell at: LT0035_06/274/40, location: (226, 347)\n", + "Processed cell at: LT0035_06/274/40, location: (267, 372)\n", + "Processed cell at: LT0035_06/274/40, location: (1316, 401)\n", + "Processed cell at: LT0035_06/274/40, location: (305, 428)\n", + "Processed cell at: LT0035_06/274/40, location: (776, 442)\n", + "Processed cell at: LT0035_06/274/40, location: (952, 465)\n", + "Processed cell at: LT0035_06/274/40, location: (812, 474)\n", + "Processed cell at: LT0035_06/274/40, location: (212, 497)\n", + "Processed cell at: LT0047_27/140/68, location: (381, 57)\n", + "Processed cell at: 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location: (750, 740)\n", + "Processed cell at: LT0047_27/140/68, location: (267, 776)\n", + "Processed cell at: LT0047_27/140/68, location: (104, 849)\n", + "Processed cell at: LT0047_27/140/68, location: (1043, 849)\n", + "Processed cell at: LT0047_27/140/68, location: (998, 856)\n", + "Processed cell at: LT0047_27/140/68, location: (126, 861)\n", + "Processed cell at: LT0047_27/140/68, location: (799, 886)\n", + "Processed cell at: LT0047_27/140/68, location: (213, 898)\n", + "Processed cell at: LT0047_27/140/68, location: (817, 901)\n", + "Processed cell at: LT0047_27/140/68, location: (292, 903)\n", + "Processed cell at: LT0047_27/140/68, location: (368, 904)\n", + "Processed cell at: LT0047_27/140/68, location: (1003, 907)\n", + "Processed cell at: LT0047_27/140/68, location: (388, 918)\n", + "Processed cell at: LT0047_27/140/68, location: (611, 930)\n", + "Processed cell at: LT0047_27/140/68, location: (354, 938)\n", + "Processed cell at: LT0047_27/140/68, location: (988, 950)\n", + "Processed cell at: LT0047_27/140/68, location: (678, 979)\n", + "Processed cell at: LT0047_27/140/68, location: (846, 988)\n", + "Processed cell at: LT0047_27/140/94, location: (768, 286)\n", + "Processed cell at: LT0047_27/140/94, location: (646, 319)\n", + "Processed cell at: LT0047_27/140/94, location: (478, 378)\n", + "Processed cell at: LT0047_27/140/94, location: (565, 380)\n", + "Processed cell at: LT0047_27/140/94, location: (365, 384)\n", + "Processed cell at: LT0047_27/140/94, location: (750, 446)\n", + "Processed cell at: LT0047_27/140/94, location: (743, 503)\n", + "Processed cell at: LT0047_27/140/94, location: (441, 513)\n", + "Processed cell at: LT0047_27/140/94, location: (509, 573)\n", + "Processed cell at: LT0047_27/140/94, location: (691, 625)\n", + "Processed cell at: LT0047_27/140/94, location: (623, 633)\n", + "Processed cell at: LT0047_27/140/94, location: (421, 637)\n", + "Processed cell at: LT0047_27/140/94, location: (537, 653)\n", + "Processed 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location: (388, 674)\n", + "Processed cell at: LT0046_19/356/57, location: (122, 890)\n", + "Processed cell at: LT0046_19/356/57, location: (112, 906)\n", + "Processed cell at: LT0046_19/356/57, location: (95, 914)\n", + "Processed cell at: LT0046_19/356/92, location: (811, 77)\n", + "Processed cell at: LT0046_19/356/92, location: (795, 87)\n", + "Processed cell at: LT0046_19/356/92, location: (821, 96)\n", + "Processed cell at: LT0046_19/356/92, location: (482, 179)\n", + "Processed cell at: LT0046_19/356/92, location: (701, 192)\n", + "Processed cell at: LT0046_19/356/92, location: (737, 200)\n", + "Processed cell at: LT0046_19/356/92, location: (475, 205)\n", + "Processed cell at: LT0046_19/356/92, location: (719, 207)\n", + "Processed cell at: LT0046_19/356/92, location: (855, 211)\n", + "Processed cell at: LT0046_19/356/92, location: (498, 210)\n", + "Processed cell at: LT0046_19/356/92, location: (755, 217)\n", + "Processed cell at: LT0046_19/356/92, location: (646, 229)\n", + "Processed cell at: LT0046_19/356/92, location: (626, 239)\n", + "Processed cell at: LT0046_19/356/92, location: (604, 247)\n", + "Processed cell at: LT0046_19/356/92, location: (280, 275)\n", + "Processed cell at: LT0046_19/356/92, location: (285, 296)\n", + "Processed cell at: LT0046_19/356/92, location: (280, 314)\n", + "Processed cell at: LT0046_19/356/92, location: (167, 423)\n", + "Processed cell at: LT0046_19/356/92, location: (614, 487)\n", + "Processed cell at: LT0046_19/356/92, location: (1079, 606)\n", + "Processed cell at: LT0046_19/356/92, location: (1123, 614)\n", + "Processed cell at: LT0046_19/356/92, location: (172, 618)\n", + "Processed cell at: LT0046_19/356/92, location: (226, 618)\n", + "Processed cell at: LT0046_19/356/92, location: (1095, 624)\n", + "Processed cell at: LT0046_19/356/92, location: (194, 622)\n", + "Processed cell at: LT0046_19/356/92, location: (1056, 631)\n", + "Processed cell at: LT0046_19/356/92, location: (209, 635)\n", + "Processed cell at: 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location: (34, 821)\n", + "Processed cell at: LT0093_13/147/69, location: (85, 836)\n", + "Processed cell at: LT0093_13/147/69, location: (385, 840)\n", + "Processed cell at: LT0093_13/147/69, location: (382, 854)\n", + "Processed cell at: LT0093_13/147/69, location: (54, 866)\n", + "Processed cell at: LT0093_13/147/69, location: (80, 863)\n", + "Processed cell at: LT0093_13/147/69, location: (398, 870)\n", + "Processed cell at: LT0093_13/147/69, location: (519, 875)\n", + "Processed cell at: LT0093_13/147/69, location: (386, 882)\n", + "Processed cell at: LT0093_13/147/77, location: (937, 108)\n", + "Processed cell at: LT0093_13/147/77, location: (922, 140)\n", + "Processed cell at: LT0093_13/147/77, location: (1114, 385)\n", + "Processed cell at: LT0093_13/147/77, location: (1079, 555)\n", + "Processed cell at: LT0093_13/147/77, location: (1097, 810)\n", + "Processed cell at: LT0093_13/147/77, location: (657, 830)\n", + "Processed cell at: LT0093_13/147/77, location: (688, 835)\n", + "Processed cell at: LT0093_13/147/77, location: (1113, 869)\n", + "Processed cell at: LT0093_13/147/77, location: (1065, 879)\n", + "Processed cell at: LT0093_13/147/77, location: (744, 899)\n", + "Processed cell at: LT0093_13/147/77, location: (1089, 910)\n", + "Processed cell at: LT0093_13/147/77, location: (748, 912)\n", + "Processed cell at: LT0093_13/147/77, location: (738, 930)\n", + "Processed cell at: LT0093_13/147/77, location: (836, 966)\n", + "Processed cell at: LT0093_13/147/77, location: (848, 995)\n", + "Processed cell at: LT0093_13/147/59, location: (1121, 103)\n", + "Processed cell at: LT0093_13/147/59, location: (1267, 359)\n", + "Processed cell at: LT0093_13/147/59, location: (896, 541)\n", + "Processed cell at: LT0093_13/147/75, location: (1070, 90)\n", + "Processed cell at: LT0093_13/147/75, location: (984, 234)\n", + "Processed cell at: LT0093_13/147/75, location: (616, 327)\n", + "Processed cell at: LT0093_13/147/75, location: (1102, 440)\n", + "Processed cell at: LT0093_13/147/75, location: (997, 574)\n", + "Processed cell at: LT0093_13/147/75, location: (523, 871)\n", + "Processed cell at: LT0138_03/127/44, location: (682, 222)\n", + "Processed cell at: LT0138_03/127/44, location: (625, 436)\n", + "Processed cell at: LT0138_03/127/44, location: (638, 498)\n", + "Processed cell at: LT0138_03/127/44, location: (900, 521)\n", + "Processed cell at: LT0138_03/127/44, location: (844, 528)\n", + "Processed cell at: LT0138_03/127/44, location: (643, 672)\n", + "Processed cell at: LT0138_03/127/44, location: (621, 698)\n", + "Processed cell at: LT0138_03/127/44, location: (182, 844)\n", + "Processed cell at: LT0138_03/127/44, location: (1139, 920)\n", + "Processed cell at: LT0138_03/127/51, location: (554, 152)\n", + "Processed cell at: LT0138_03/127/51, location: (698, 162)\n", + "Processed cell at: LT0138_03/127/51, location: (542, 173)\n", + "Processed cell at: LT0138_03/127/51, location: (739, 186)\n", + "Processed cell at: LT0138_03/127/51, 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"Processed cell at: LT0138_03/127/62, location: (537, 847)\n", + "Processed cell at: LT0138_03/127/35, location: (868, 464)\n", + "Processed cell at: LT0138_03/127/35, location: (631, 497)\n", + "Processed cell at: LT0138_03/127/35, location: (638, 672)\n", + "Processed cell at: LT0138_03/127/35, location: (706, 680)\n", + "Processed cell at: LT0138_03/127/35, location: (25, 693)\n", + "Processed cell at: LT0138_03/127/35, location: (818, 692)\n", + "Processed cell at: LT0138_03/127/35, location: (618, 699)\n", + "Processed cell at: LT0138_03/127/35, location: (707, 802)\n", + "Processed cell at: LT0138_03/127/35, location: (707, 836)\n", + "Processed cell at: LT0138_03/127/31, location: (561, 141)\n", + "Processed cell at: LT0138_03/127/31, location: (555, 151)\n", + "Processed cell at: LT0138_03/127/31, location: (724, 228)\n", + "Processed cell at: LT0138_03/127/31, location: (971, 269)\n", + "Processed cell at: LT0138_03/127/31, location: (870, 467)\n", + "Processed cell at: 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location: (1072, 316)\n", + "Processed cell at: LT0090_33/383/84, location: (568, 320)\n", + "Processed cell at: LT0090_33/383/84, location: (807, 320)\n", + "Processed cell at: LT0090_33/383/84, location: (1017, 319)\n", + "Processed cell at: LT0090_33/383/84, location: (658, 332)\n", + "Processed cell at: LT0090_33/383/84, location: (1032, 324)\n", + "Processed cell at: LT0090_33/383/84, location: (1080, 330)\n", + "Processed cell at: LT0090_33/383/84, location: (490, 345)\n", + "Processed cell at: LT0090_33/383/84, location: (1025, 362)\n", + "Processed cell at: LT0090_33/383/84, location: (1086, 360)\n", + "Processed cell at: LT0090_33/383/84, location: (781, 378)\n", + "Processed cell at: LT0090_33/383/84, location: (667, 391)\n", + "Processed cell at: LT0090_33/383/84, location: (516, 398)\n", + "Processed cell at: LT0090_33/383/84, location: (681, 400)\n", + "Processed cell at: LT0090_33/383/84, location: (285, 436)\n", + "Processed cell at: LT0090_33/383/84, location: (299, 482)\n", + "Processed cell at: LT0090_33/383/84, location: (674, 607)\n", + "Processed cell at: LT0090_33/383/84, location: (664, 618)\n", + "Processed cell at: LT0090_33/383/84, location: (414, 623)\n", + "Processed cell at: LT0090_33/383/84, location: (414, 639)\n", + "Processed cell at: LT0090_33/383/84, location: (315, 646)\n", + "Processed cell at: LT0090_33/383/84, location: (733, 659)\n", + "Processed cell at: LT0090_33/383/84, location: (601, 658)\n", + "Processed cell at: LT0090_33/383/84, location: (729, 673)\n", + "Processed cell at: LT0090_33/383/84, location: (606, 673)\n", + "Processed cell at: LT0090_33/383/84, location: (549, 697)\n", + "Processed cell at: LT0090_33/383/84, location: (562, 708)\n", + "Processed cell at: LT0090_33/383/84, location: (384, 949)\n", + "Processed cell at: LT0090_33/383/92, location: (1162, 52)\n", + "Processed cell at: LT0090_33/383/92, location: (1186, 115)\n", + "Processed cell at: LT0090_33/383/92, location: (575, 316)\n", + "Processed 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location: (707, 618)\n", + "Processed cell at: LT0090_33/383/92, location: (691, 621)\n", + "Processed cell at: LT0090_33/383/92, location: (756, 627)\n", + "Processed cell at: LT0090_33/383/92, location: (776, 641)\n", + "Processed cell at: LT0090_33/383/92, location: (250, 659)\n", + "Processed cell at: LT0090_33/383/92, location: (729, 657)\n", + "Processed cell at: LT0090_33/383/92, location: (734, 668)\n", + "Processed cell at: LT0090_33/383/92, location: (723, 680)\n", + "Processed cell at: LT0106_02/287/19, location: (488, 58)\n", + "Processed cell at: LT0106_02/287/19, location: (577, 102)\n", + "Processed cell at: LT0106_02/287/19, location: (1200, 151)\n", + "Processed cell at: LT0106_02/287/19, location: (1216, 148)\n", + "Processed cell at: LT0106_02/287/19, location: (157, 275)\n", + "Processed cell at: LT0106_02/287/19, location: (850, 318)\n", + "Processed cell at: LT0106_02/287/19, location: (676, 334)\n", + "Processed cell at: LT0106_02/287/19, location: (58, 395)\n", 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location: (855, 324)\n", + "Processed cell at: LT0106_02/287/6, location: (816, 408)\n", + "Processed cell at: LT0106_02/287/6, location: (645, 665)\n", + "Processed cell at: LT0106_02/287/33, location: (828, 338)\n", + "Processed cell at: LT0106_02/287/33, location: (63, 384)\n", + "Processed cell at: LT0106_02/287/33, location: (800, 408)\n", + "Processed cell at: LT0106_02/287/33, location: (105, 429)\n", + "Processed cell at: LT0106_02/287/33, location: (94, 469)\n" + ] + } + ], + "source": [ + "base_url = \"https://raw.github.com/WayScience/mitocheck_data/\"\n", + "# hash changes depending on desired version of mitocheck_data being used\n", + "hash = \"de21b9c3201ba4298db2b1704f3ae510a5dc47e2\"\n", + "mitocheck_data_version_url = f\"{base_url}/{hash}\"\n", + "\n", + "output_dir = pathlib.Path(\"data/\")\n", + "output_dir.mkdir(parents=True, exist_ok=True)\n", + "save_path = pathlib.Path(f\"{output_dir}/training_data.csv.gz\")\n", + "compression = \"gzip\"\n", + "\n", + "training_data = format_training_data(mitocheck_data_version_url, save_path, compression)" + ] + }, + { + "cell_type": "code", + "execution_count": 4, + "metadata": {}, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "(4308, 1292)\n" + ] + }, + { + "data": { + "text/html": [ + "
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Mitocheck_Phenotypic_ClassMitocheck_Object_IDLocation_Center_XLocation_Center_YMetadata_PlateMetadata_WellMetadata_SiteMetadata_Plate_Map_NameMetadata_DNAMetadata_Gene...efficientnet_1270efficientnet_1271efficientnet_1272efficientnet_1273efficientnet_1274efficientnet_1275efficientnet_1276efficientnet_1277efficientnet_1278efficientnet_1279
0ADCCM13.0262.77777820.126984LT0043_48166_481LT0043_48_166_48LT0043_48/166/48/LT0043_48_166_48.tifOGG1...0.207932-0.7365470.0108630.290715-0.508518-0.6669120.527043-0.2164740.659347-0.692728
1ADCCM13.0239.51724128.206897LT0043_48166_481LT0043_48_166_48LT0043_48/166/48/LT0043_48_166_48.tifOGG1...0.38972-0.562691-0.044208-0.159093-0.605761-0.6054340.3765-0.4965710.028506-0.152331
2ADCCM13.0252.98039235.862745LT0043_48166_481LT0043_48_166_48LT0043_48/166/48/LT0043_48_166_48.tifOGG1...-0.154282-0.5190650.5842690.860831-0.446671-0.4096930.383752-0.343047-0.3702320.267983
3ADCCM13.0258.28846246.038462LT0043_48166_481LT0043_48_166_48LT0043_48/166/48/LT0043_48_166_48.tifOGG1...-0.298543-0.5870310.8385061.16317-0.083327-0.206650.253444-0.0847820.073759-0.251357
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\n", + "

5 rows × 1292 columns

\n", + "
" + ], + "text/plain": [ + " Mitocheck_Phenotypic_Class Mitocheck_Object_ID Location_Center_X \\\n", + "0 ADCCM 13.0 262.777778 \n", + "1 ADCCM 13.0 239.517241 \n", + "2 ADCCM 13.0 252.980392 \n", + "3 ADCCM 13.0 258.288462 \n", + "4 Shape3 10.0 1212.640449 \n", + "\n", + " Location_Center_Y Metadata_Plate Metadata_Well Metadata_Site \\\n", + "0 20.126984 LT0043_48 166_48 1 \n", + "1 28.206897 LT0043_48 166_48 1 \n", + "2 35.862745 LT0043_48 166_48 1 \n", + "3 46.038462 LT0043_48 166_48 1 \n", + "4 21.314607 LT0043_48 166_55 1 \n", + "\n", + " Metadata_Plate_Map_Name Metadata_DNA \\\n", + "0 LT0043_48_166_48 LT0043_48/166/48/LT0043_48_166_48.tif \n", + "1 LT0043_48_166_48 LT0043_48/166/48/LT0043_48_166_48.tif \n", + "2 LT0043_48_166_48 LT0043_48/166/48/LT0043_48_166_48.tif \n", + "3 LT0043_48_166_48 LT0043_48/166/48/LT0043_48_166_48.tif \n", + "4 LT0043_48_166_55 LT0043_48/166/55/LT0043_48_166_55.tif \n", + "\n", + " Metadata_Gene ... efficientnet_1270 efficientnet_1271 efficientnet_1272 \\\n", + "0 OGG1 ... 0.207932 -0.736547 0.010863 \n", + "1 OGG1 ... 0.38972 -0.562691 -0.044208 \n", + "2 OGG1 ... -0.154282 -0.519065 0.584269 \n", + "3 OGG1 ... -0.298543 -0.587031 0.838506 \n", + "4 OGG1 ... 1.764085 -0.364659 -0.623983 \n", + "\n", + " efficientnet_1273 efficientnet_1274 efficientnet_1275 efficientnet_1276 \\\n", + "0 0.290715 -0.508518 -0.666912 0.527043 \n", + "1 -0.159093 -0.605761 -0.605434 0.3765 \n", + "2 0.860831 -0.446671 -0.409693 0.383752 \n", + "3 1.16317 -0.083327 -0.20665 0.253444 \n", + "4 0.087524 -0.678471 -1.04743 0.1197 \n", + "\n", + " efficientnet_1277 efficientnet_1278 efficientnet_1279 \n", + "0 -0.216474 0.659347 -0.692728 \n", + "1 -0.496571 0.028506 -0.152331 \n", + "2 -0.343047 -0.370232 0.267983 \n", + "3 -0.084782 0.073759 -0.251357 \n", + "4 0.254014 0.080685 -0.808582 \n", + "\n", + "[5 rows x 1292 columns]" + ] + }, + "execution_count": 4, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "print(training_data.shape)\n", + "training_data.head()" + ] + } + ], + "metadata": { + "kernelspec": { + "display_name": "Python 3.8.13 ('1.format_training_data')", + "language": "python", + "name": "python3" + }, + "language_info": { + "codemirror_mode": { + "name": "ipython", + "version": 3 + }, + "file_extension": ".py", + "mimetype": "text/x-python", + "name": "python", + "nbconvert_exporter": "python", + "pygments_lexer": "ipython3", + "version": "3.8.13" + }, + "orig_nbformat": 4, + "vscode": { + "interpreter": { + "hash": "ae034360bdddb129fa85f9eede9cbeb42bd6cc20eebc1ae813504c3c5ca537a5" + } + } + }, + "nbformat": 4, + "nbformat_minor": 2 +} diff --git a/1.format_data/format_training_data.py b/1.format_data/format_training_data.py new file mode 100644 index 00000000..9635c831 --- /dev/null +++ b/1.format_data/format_training_data.py @@ -0,0 +1,185 @@ +#!/usr/bin/env python +# coding: utf-8 + +# # Format Training Data +# +# ### Access training data from specific commit of [mitocheck_data](https://github.com/WayScience/mitocheck_data) and format this data into a single CSV file +# +# ### Import libraries + +# In[1]: + + +import pandas as pd +import urllib +import pathlib + + +# ### Define functions for formatting training data + +# In[2]: + + +def get_single_cell_metadata(single_cell_data: pd.DataFrame): + """get plate, well, frame information from single cell data + + Args: + single_cell_data (pd.Dataframe): dataframe with single cell data + + Returns: + str, str, str: plate, well, frame metadata as strings + """ + # Metadata_DNA is in format plate/well/frame/filename.tif so get plate, well, frame info from this + single_cell_info = single_cell_data["Metadata_DNA"].split("/") + plate = single_cell_info[0] + well = single_cell_info[1] + frame = single_cell_info[2] + return plate, well, frame + + +def get_cell_class( + single_cell_data: pd.DataFrame, + trainingset_file_url: str, + plate: str, + well: str, + frame: str, +) -> str: + """get phenotypic class of cell from trainingset.dat file, as labeled by MitoCheck + + Args: + single_cell_data (pd.DataFrame): dataframe with single cell data + trainingset_file_url (str): url location of raw traininset.dat file + plate (str): plate cell is from + well (str): well cell is from + frame (str): frame cell is from + + Returns: + str: phenotypic class of nucleus, as labeled by MitoCheck + """ + well_string = f"W{str(well).zfill(5)}" + frame_time = (int(frame) - 1) * 30 + frame_time_string = f"T{str(frame_time).zfill(5)}" + frame_file_details = [plate, well_string, frame_time_string] + obj_id = int(single_cell_data["Mitocheck_Object_ID"].item()) + obj_id_prefix = f"{obj_id}: " + + append = False + # need to open trainingset file each time + trainingset_file = urllib.request.urlopen(trainingset_file_url) + for line in trainingset_file: + decoded_line = line.decode("utf-8").strip() + # match plate, well, frame to starting line for movie labels + if all(detail in decoded_line for detail in frame_file_details): + append = True + if append and decoded_line.startswith(obj_id_prefix): + return decoded_line.split(": ")[1] + return None + + +def complete_single_cell( + single_cell_data: pd.DataFrame, + trainingset_file_url: str, + segmentation_data_dir: str, +) -> pd.DataFrame: + """Add Mitocheck_Object_ID and Mitocheck_Phenotypic_Class fields to single cell data by matching cell object ID to phenotypic class given in traininset.dat + + Args: + single_cell_data (pd.DataFrame): single cell data + trainingset_file_url (str): url location of raw traininset.dat file + segmentation_data_dir (str): url location of the raw segmentation data directory + + Returns: + pd.DataFrame: completed single cell data + """ + plate, well, frame = get_single_cell_metadata(single_cell_data) + segmentation_data_url = ( + f"{segmentation_data_dir}/{plate}/{well}/{frame}/{plate}_{well}_{frame}.tsv" + ) + full_segmentation_data = pd.read_csv(segmentation_data_url, delimiter="\t").round(0) + cell_x_y = ( + round(single_cell_data["Location_Center_X"]), + round(single_cell_data["Location_Center_Y"]), + ) + cell_segmentation_data = full_segmentation_data.loc[ + (full_segmentation_data["Location_Center_X"] == cell_x_y[0]) + & (full_segmentation_data["Location_Center_Y"] == cell_x_y[1]) + ] + print(f"Processed cell at: {plate}/{well}/{frame}, location: {cell_x_y}") + if cell_segmentation_data.empty: + print("No segmentation data match found for this cell!") + else: + single_cell_data = single_cell_data.to_frame().transpose() + single_cell_data.insert( + 0, + "Mitocheck_Object_ID", + cell_segmentation_data["Mitocheck_Object_ID"].item(), + ) + cell_phenotypic_class = get_cell_class( + single_cell_data, trainingset_file_url, plate, well, frame + ) + if cell_phenotypic_class == None: + print("This cell was not found in trainingset.dat!") + single_cell_data.insert(0, "Mitocheck_Phenotypic_Class", cell_phenotypic_class) + + return single_cell_data + + +def format_training_data( + mitocheck_data_version_url: str, save_path: pathlib.Path, compression: str +) -> pd.DataFrame: + """Add Mitocheck_Object_ID and Mitocheck_Phenotypic_Class fields to each single cell and compile all the cells into a single training data dataframe + + Args: + mitocheck_data_version_url (str): url with path to desired version of raw mitocheck_data + save_path (pathlib.Path): path to save training data + compression (str): type of compression to use when saving dataframe + + Returns: + pd.DataFrame: completed training data with Mitocheck_Object_ID and Mitocheck_Phenotypic_Class for each cell + """ + trainingset_file_url = ( + f"{mitocheck_data_version_url}/0.download_data/trainingset.dat" + ) + segmentation_data_dir = f"{mitocheck_data_version_url}/2.segment_nuclei/segmented/" + preprocessed_features_url = f"{mitocheck_data_version_url}/4.preprocess_features/data/normalized_training_data.csv.gz" + + preprocessed_features = pd.read_csv(preprocessed_features_url, compression="gzip") + print("Loaded preprocessed features!") + + training_data = [] + for index, row in preprocessed_features.iterrows(): + single_cell = row + completed_single_cell = complete_single_cell( + single_cell, trainingset_file_url, segmentation_data_dir + ) + training_data.append(completed_single_cell) + + training_data = pd.concat(training_data) + training_data.to_csv(save_path, compression=compression) + return training_data + + +# ### Format training data + +# In[3]: + + +base_url = "https://raw.github.com/WayScience/mitocheck_data/" +# hash changes depending on desired version of mitocheck_data being used +hash = "de21b9c3201ba4298db2b1704f3ae510a5dc47e2" +mitocheck_data_version_url = f"{base_url}/{hash}" + +output_dir = pathlib.Path("data/") +output_dir.mkdir(parents=True, exist_ok=True) +save_path = pathlib.Path(f"{output_dir}/training_data.csv.gz") +compression = "gzip" + +training_data = format_training_data(mitocheck_data_version_url, save_path, compression) + + +# In[4]: + + +print(training_data.shape) +training_data.head() + diff --git a/LICENSE b/LICENSE new file mode 100644 index 00000000..2f244ac8 --- /dev/null +++ b/LICENSE @@ -0,0 +1,395 @@ +Attribution 4.0 International + +======================================================================= + +Creative Commons Corporation ("Creative Commons") is not a law firm and +does not provide legal services or legal advice. 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For +the avoidance of doubt, this paragraph does not form part of the +public licenses. + +Creative Commons may be contacted at creativecommons.org. diff --git a/README.md b/README.md index 94321199..8cd73211 100644 --- a/README.md +++ b/README.md @@ -1,2 +1,7 @@ -# phenotypic_profiling_model -Training and validating ML model using data from [mitocheck_data](https://github.com/WayScience/mitocheck_data) +# Phenotypic Profiling Model + +## Data + +Instructions for data download/processing can be found at: https://github.com/WayScience/mitocheck_data + +## Analysis