LSMS_Library 0.2.7__py3-none-any.whl → 0.2.9.dev0__py3-none-any.whl

lsms_library/__init__.py

@@ -1,7 +1,6 @@
 from . import country
 from . country import Country, Wave
 from . import local_tools as tools
-#from . import countries
-#from .countries import GhanaLSS
 from .categorical_mapping import ai_agent
 from . import transformations
+from .dvc_permissions import authenticate

lsms_library/countries/.dvc/.gitignore

@@ -0,0 +1,3 @@
+/config.local
+/tmp
+/cache

lsms_library/countries/.dvc/config

@@ -0,0 +1,13 @@
+[core]
+    remote = ligonresearch_s3
+    autostage = true
+[cache]
+    type = reflink
+['remote "ligonresearch"']
+    url = gdrive://1oVOdo2-oeM_LYBSe1lKSr-pm08syczdu/LSMS
+    gdrive_use_service_account = true
+    gdrive_service_account_json_file_path = gdrive_creds.json
+['remote "ligonresearch_s3"']
+    url = s3://dvcbucket0/LSMS
+    credentialpath = s3_creds
+    configpath = s3_config

lsms_library/countries/.dvc/plots/confusion.json

@@ -0,0 +1,30 @@
+{
+    "$schema": "https://vega.github.io/schema/vega-lite/v4.json",
+    "data": {
+        "values": "<DVC_METRIC_DATA>"
+    },
+    "title": "<DVC_METRIC_TITLE>",
+    "mark": "rect",
+    "encoding": {
+        "x": {
+            "field": "<DVC_METRIC_X>",
+            "type": "nominal",
+            "sort": "ascending",
+            "title": "<DVC_METRIC_X_LABEL>"
+        },
+        "y": {
+            "field": "<DVC_METRIC_Y>",
+            "type": "nominal",
+            "sort": "ascending",
+            "title": "<DVC_METRIC_Y_LABEL>"
+        },
+        "color": {
+            "aggregate": "count",
+            "type": "quantitative"
+        },
+        "facet": {
+            "field": "rev",
+            "type": "nominal"
+        }
+    }
+}

lsms_library/countries/.dvc/plots/default.json

@@ -0,0 +1,29 @@
+{
+    "$schema": "https://vega.github.io/schema/vega-lite/v4.json",
+    "data": {
+        "values": "<DVC_METRIC_DATA>"
+    },
+    "title": "<DVC_METRIC_TITLE>",
+    "mark": {
+        "type": "line"
+    },
+    "encoding": {
+        "x": {
+            "field": "<DVC_METRIC_X>",
+            "type": "quantitative",
+            "title": "<DVC_METRIC_X_LABEL>"
+        },
+        "y": {
+            "field": "<DVC_METRIC_Y>",
+            "type": "quantitative",
+            "title": "<DVC_METRIC_Y_LABEL>",
+            "scale": {
+                "zero": false
+            }
+        },
+        "color": {
+            "field": "rev",
+            "type": "nominal"
+        }
+    }
+}

lsms_library/countries/.dvc/plots/scatter.json

@@ -0,0 +1,27 @@
+{
+    "$schema": "https://vega.github.io/schema/vega-lite/v4.json",
+    "data": {
+        "values": "<DVC_METRIC_DATA>"
+    },
+    "title": "<DVC_METRIC_TITLE>",
+    "mark": "point",
+    "encoding": {
+        "x": {
+            "field": "<DVC_METRIC_X>",
+            "type": "quantitative",
+            "title": "<DVC_METRIC_X_LABEL>"
+        },
+        "y": {
+            "field": "<DVC_METRIC_Y>",
+            "type": "quantitative",
+            "title": "<DVC_METRIC_Y_LABEL>",
+            "scale": {
+                "zero": false
+            }
+        },
+        "color": {
+            "field": "rev",
+            "type": "nominal"
+        }
+    }
+}

lsms_library/countries/.dvc/plots/smooth.json

@@ -0,0 +1,39 @@
+{
+    "$schema": "https://vega.github.io/schema/vega-lite/v4.json",
+    "data": {
+        "values": "<DVC_METRIC_DATA>"
+    },
+    "title": "<DVC_METRIC_TITLE>",
+    "mark": {
+        "type": "line"
+    },
+    "encoding": {
+        "x": {
+            "field": "<DVC_METRIC_X>",
+            "type": "quantitative",
+            "title": "<DVC_METRIC_X_LABEL>"
+        },
+        "y": {
+            "field": "<DVC_METRIC_Y>",
+            "type": "quantitative",
+            "title": "<DVC_METRIC_Y_LABEL>",
+            "scale": {
+                "zero": false
+            }
+        },
+        "color": {
+            "field": "rev",
+            "type": "nominal"
+        }
+    },
+    "transform": [
+        {
+            "loess": "<DVC_METRIC_Y>",
+            "on": "<DVC_METRIC_X>",
+            "groupby": [
+                "rev"
+            ],
+            "bandwidth": 0.3
+        }
+    ]
+}

lsms_library/countries/.dvc/s3_config

@@ -0,0 +1,2 @@
+[default]
+region=us-west-1

lsms_library/countries/Uganda/2005-06/_/data_info.yml

@@ -29,6 +29,6 @@ cluster_features:
         District: h1aq1
         Rural:
             - urban
-            - #Value mapping dictionary
+            - # Value mapping dictionary
                 urban: Urban
                 0: Rural

lsms_library/countries/Uganda/_/Makefile

@@ -28,7 +28,7 @@ interview_date_parquet := $(interview_date:.py=.parquet)
 enterprise_income = $(shell find $(rounds) -name enterprise_income.py)
 enterprise_income_parquet := $(enterprise_income:.py=.parquet)
 
-../var/enterprise_income.parquet: enterprise_income.py $(enterprise_income_parquet)
+../var/enterprise_income.parquet: enterprise_income.py $(enterprise_income_parquet) ../var/other_features.parquet
 	python enterprise_income.py
 
 assets = $(shell find $(rounds) -name assets.py)
@@ -40,7 +40,7 @@ assets_parquet := $(assets:.py=.parquet)
 earnings = $(shell find $(rounds) -name earnings.py)
 earnings_parquet := $(earnings:.py=.parquet)
 
-../var/earnings.parquet: earnings.py $(earnings_parquet)
+../var/earnings.parquet: earnings.py $(earnings_parquet) ../var/other_features.parquet
 	python earnings.py
 
 shocks = $(shell find $(rounds) -name shocks.py)

lsms_library/countries/Uganda/_/data_scheme.yml

@@ -21,3 +21,6 @@ Data Scheme:
   food_expenditures: # USE_MAKEFILE
   food_prices:
   panel_ids:
+  income:
+  enterprise_income:
+  other_features:

lsms_library/countries/Uganda/_/household_characteristics.py

@@ -1,13 +1,11 @@
 #!/usr/bin/env python
-from lsms_library.local_tools import to_parquet
-from lsms_library.local_tools import get_dataframe
 """
 Concatenate data on other household features across rounds.
 """
-
+import json
 import pandas as pd
+from lsms_library.local_tools import to_parquet, get_dataframe
 from uganda import Waves, id_walk
-import json
 
 x = {}
 

lsms_library/countries/Uganda/_/unitlabels.csv

@@ -0,0 +1,290 @@
+Code,Preferred Label
+0,---
+1,Kg
+2,Gram
+3,Litre
+4,Akendo (Small)
+5,Metre
+6,Square metre
+7,Yard
+8,Millilitre
+9,Sack (120 kgs)
+10,Sack (100 kgs)
+11,Sack (80 kgs)
+12,Sack (50 kgs)
+13,Sack (unspecified)
+14,Jerrican (20 lts)
+15,Jerrican (10 lts)
+16,Jerrican (5 lts)
+17,Jerrican (3 lts)
+18,Jerrican (2 lts)
+19,Jerrican (1 lt)
+20,Tin (Debe) (20 lts)
+21,Tin (5 lts)
+22,Plastic Basin (15 lts)
+23,Bottle(750ml)
+24,Bottle(500ml)
+25,Bottle(350ml)
+26,Bottle(300ml)
+27,Bottle(250ml)
+28,Bottle(150ml)
+29,Kimbo/Cowboy/Blueband Tin (2kg)
+30,Kimbo/Cowboy/Blueband Tin (1kg)
+31,Kimbo/Cowboy/Blueband Tin (0.5kg)
+32,Cup/Mug(0.5lt)
+33,Glass(0.25lt)
+34,Ladle(100g)
+35,Table spoon
+36,Tea spoon
+37,Basket (20 kg)
+38,Basket (10 kg)
+39,Basket (5 kg)
+40,Basket (2 kg)
+41,Loaf (1kg)
+42,Loaf (500g)
+43,Buns (200 g)
+44,Buns (100 g)
+45,Buns (50 g)
+46,Bathing soap (Tablet)
+47,Washing soap (Bar)
+48,Washing soap (Tablet)
+49,Packet (2 kg)
+50,Packet (1 kg)
+51,Packet (500 g)
+52,Packet (250 g)
+53,Packet (100 g)
+54,Packet(125g)
+55,Fish Whole (Small)
+56,Fish Whole (Medium)
+57,Fish Whole  (Large)
+58,Fish Cut piece (up to 1kg)
+59,Fish Cut piece (1 - 2 kg)
+60,Fish Cut piece(Above 2  kg)
+61,Tray of 30 eggs
+62,Ream
+63,Crate
+64,Heap (unspecified)
+65,Dozen
+66,Bundle (Unspecified)
+67,Bunch (Big)
+68,Bunch (Medium)
+69,Bunch (Small)
+70,Bunch (Big)
+71,Bunch (Medium)
+72,Bunch (Small)
+73,Cluster (Unspecified)
+74,Gourd (1-5lts)
+75,Gourd (5-10lts)
+76,Gourd (Above 10 lts)
+77,Jug (2 lts)
+78,Jug (1.5 lts)
+79,Jug (1 lt)
+80,Tot (50 ml)
+81,Tot (sachet)
+82,Tot (Unspecified)
+83,Tobacco leaf (Number)
+84,Pair
+85,Number of Units (General)
+86,Acre
+87,Piece (Big)
+88,Piece (Medium)
+89,Piece (Small)
+90,Heap (Big)
+91,Heap (Medium)
+92,Heap (Small)
+93,Cluster (Big)
+94,Cluster (Medium)
+95,Cluster (Small)
+96,Bundle (Big)
+97,Bundle (Medium)
+98,Bundle (Small)
+99,Others specify
+100,Fish Whole (Large)
+101,Fish Whole (Medium)
+102,Fish Whole (Small)
+103,Plastic Basin (5 ltrs)
+104,Glass (500ml)
+105,Glass (125ml)
+106,Jug (2.5ltrs)
+107,Nice cup (100g) - Large
+108,Nice cup (60g) - Medium
+109,Nice cup (50g) - Small
+110,Metallic tumbler (100g) - Big
+111,Metallic tumbler (50g) - Small
+112,Plastic tumbler (50g) - Big
+113,Plastic tumbler (30g) - Small
+114,Plastic plate (60g) - Large
+115,Plastic plate (30g) - Small
+116,Metallic plate (100g) - Large
+117,Metallic plate (80g) - Small
+118,Plastic bowl (40g)
+119,Nomi Tin (1kg)
+120,Nomi Tin (500g)
+121,Nomi Tin (250g)
+122,Nido Tin (400g)
+123,Akendo (Big)
+124,Akendo (Medium)
+125,Akendo (Small)
+126,Jerrican (500 ml)
+127,Container (Big)
+128,Container (Medium)
+129,Container (Small)
+130,Container (Smallest)
+131,Bottle (500g)
+132,Bottle (350g)
+133,Sadolin Tin (3ltrs)
+134,Loaf (1kg)
+135,Loaf (500g)
+137,Bottle (1ltr)
+138,Bottle (1.5ltr)
+139,Bottle (2ltr)
+140,Sacket (10g)
+141,Sacket (15g)
+142,Sacket (20g)
+143,Sacket (25g)
+144,Sacket (30g)
+145,Sacket (50g)
+146,Sacket (100g)
+147,Sacket (150g)
+104002,---
+104003,---
+104087,---
+104088,---
+104089,---
+105091,---
+105092,---
+107087,---
+107088,---
+107089,---
+107090,---
+107091,---
+107092,---
+109087,---
+109088,---
+109089,---
+109090,---
+109092,---
+111087,---
+111088,---
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+111090,---
+113087,---
+113088,---
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+114087,---
+114089,---
+121087,---
+121089,---
+122055,---
+122056,---
+122057,---
+123055,---
+123056,---
+123057,---
+123058,---
+123059,---
+123060,---
+123090,---
+123091,---
+123092,---
+124088,---
+125050,---
+125051,---
+125052,---
+128004,---
+128005,---
+128051,---
+128052,---
+128053,---
+129001,---
+129002,---
+129003,---
+129004,---
+130090,---
+130091,---
+130092,---
+131093,---
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+131095,---
+132087,---
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+133092,---
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+135091,---
+135092,---
+135096,---
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+136087,---
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+136090,---
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+138096,---
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+151024,---
+151026,---
+152024,---
+153001,---
+154001,---
+155054,---
+155099,---
+157001,---
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+159024,---
+160001,---
+161001,---
+164087,---
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+168087,---
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+168092,---
+169087,---
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+807087,---
+807089,---
+136,---
+156087,---
+139093,---
+142092,---
+156096,---
+156090,---
+181087,---
+142090,---

lsms_library/country.py

@@ -43,9 +43,8 @@ class Wave:
         
     @property
     def file_path(self):
-        var = files("lsms_library") / "countries" / self.folder
-        return var
-    
+        return files("lsms_library") / "countries" / self.folder
+
     @property
     def resources(self):
         """Load the data_info.yml that describes table structure, merges, etc."""
@@ -212,7 +211,7 @@ class Wave:
             df_edit_function = mapping_info.pop('df_edit')
             dfs = []
             for file, mappings in mapping_info.items():
-                df = df_data_grabber(f'lsms_library/countries/{self.folder}/Data/{file}', mappings['idxvars'], **mappings['myvars'], convert_categoricals=convert_cat)
+                df = df_data_grabber(f'./{self.folder}/Data/{file}', mappings['idxvars'], **mappings['myvars'], convert_categoricals=convert_cat)
                 df = check_adding_t(df)
                 # Oddity with large number for missing code
                 na = df.select_dtypes(exclude=['object', 'datetime64[ns]']).max().max()
@@ -266,7 +265,7 @@ class Wave:
 
             cwd_path = self.file_path.parent / "_"
             relative_parquet_path = parquet_fn.relative_to(cwd_path.parent)  # Convert to relative path
-            subprocess.run(["make", '../' + str(relative_parquet_path)], cwd=cwd_path, check=True)
+            subprocess.run(["make", "-s", '../' + str(relative_parquet_path)], cwd=cwd_path, check=True)
             print(f"Makefile executed successfully for {self.name}. Rechecking for parquet file...",file=stderr)
 
             if not parquet_fn.exists():
@@ -331,7 +330,7 @@ class Country:
     #                 'nonfood_expenditures.parquet', 'enterprise_income.parquet', 'assets.parquet',
     #                 'earnings.parquet', 'housing.parquet', 'income.parquet', 'fct.parquet', 'nutrition.parquet']
 
-    def __init__(self,country_name, preload_panel_ids = True):
+    def __init__(self, country_name, preload_panel_ids=True, verbose=False):
         self.name = country_name
         self._panel_ids_cache = None
         self._updated_ids_cache = None
@@ -510,7 +509,7 @@ class Country:
                 relative_path = target_path.relative_to(cwd_path.parent)
                 make_target = '../' + str(relative_path)
 
-            subprocess.run(["make", make_target], cwd=cwd_path, check=True)
+            subprocess.run(["make", "-s", make_target], cwd=cwd_path, check=True)
             print(f"Makefile executed successfully for {self.name}. Rechecking for {target_path.name}...",file=stderr)
 
             if not target_path.exists():

lsms_library/dvc_permissions.py

@@ -0,0 +1,68 @@
+#!/usr/bin/env python3
+import git
+from pathlib import Path
+import getpass
+import pkgutil
+import gnupg
+
+def is_git_repo(path='.'):
+    """
+    Check if the specified path is a Git repository.
+
+    Parameters:
+    path (str): The path to check. Default is the current directory.
+
+    Returns:
+    bool: True if the path is a valid Git repository, False otherwise.
+    """
+    try:
+        _ = git.Repo(path).git_dir
+        return True
+    except git.exc.InvalidGitRepositoryError:
+        return False
+
+def authenticate(gpg_key_file='s3_reader_creds.gpg'):
+    """
+    Decrypt the specified GPG file and store the decrypted credentials securely.
+
+    This function prompts the user for a passphrase to decrypt the provided GPG
+    file.
+
+    Parameters:
+    gpg_key_file (str): The name of the GPG file containing the encrypted credentials.
+                        Default is 's3_reader_creds.gpg'.
+
+    Raises:
+    ValueError: If decryption fails due to an incorrect passphrase or other issues.
+    """
+    # Construct the path to the encrypted file relative to this function’s location
+    gpg_path = Path(__file__).resolve().parent / 'countries' / '.dvc'
+    encrypted_file = gpg_path / gpg_key_file
+
+    # Load the encrypted data
+    encrypted_data = encrypted_file.read_bytes()
+
+    # Initialize GPG
+    gpg = gnupg.GPG()
+
+    # Prompt the user for the passphrase securely
+    passphrase = getpass.getpass(prompt='Enter passphrase for decryption: ')
+
+    # Decrypt the data
+    decrypted_data = gpg.decrypt(encrypted_data, passphrase=passphrase)
+
+    if decrypted_data.ok:
+        # Write the decrypted data to a temporary file securely
+        creds_file = gpg_path / 's3_creds'
+
+        if creds_file.exists():
+            user_input = input(f"The file {creds_file} already exists. Overwrite? (yes/no): ").strip().lower()
+            if user_input not in ['yes', 'y']:
+                print("Operation aborted. Credentials were not written.")
+                return
+
+        with open(creds_file, 'w') as f:
+            f.write(str(decrypted_data))
+        print(f"Decryption successful; credentials written to {creds_file}")
+    else:
+        raise ValueError("Decryption failed: check the passphrase and try again")

lsms_library/local_tools.py

@@ -696,11 +696,11 @@ def panel_ids(Waves):
             if isinstance(wave_info[1], list): #tanzania
                 df = wave_info[2](df, wave_info[1])
             else:
-                df[wave_info[1]] = df[wave_info[1]].apply(format_id)
-                df[wave_info[2]] = df[wave_info[2]].apply(format_id)
+                df.loc[:,wave_info[1]] = df[wave_info[1]].apply(format_id)
+                df.loc[:,wave_info[2]] = df[wave_info[2]].apply(format_id)
                 # If a transformation function is provided (tuple length 4), apply it to the old_id column
                 if len(wave_info) == 4:
-                    df[wave_info[2]] = df[wave_info[2]].apply(wave_info[3])
+                    df.loc[:,wave_info[2]] = df[wave_info[2]].apply(wave_info[3])
                 df['t'] = wave_year
                 df = df.rename(columns={wave_info[1]: 'i', wave_info[2]: 'previous_i'})
                 df = df.set_index(['t', 'i'])[['previous_i']]

{lsms_library-0.2.7.dist-info → lsms_library-0.2.9.dev0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: LSMS_Library
-Version: 0.2.7
+Version: 0.2.9.dev0
 Summary: Abstraction layer for Living Standards Measurement Survey data
 License: CC-BY-4.0
 Author: Ethan Ligon

{lsms_library-0.2.7.dist-info → lsms_library-0.2.9.dev0.dist-info}/RECORD

@@ -1,10 +1,18 @@
 lsms_library/Makefile,sha256=5iTMKOlMuK29OtDrqIrjGztt-ivnIw0l8UWI8UR0alU,607
 lsms_library/README.org,sha256=Nm5shD0nZnG_CyFXrJRK78RQJ6bNbHKL3UyVf4tK0rI,810
-lsms_library/__init__.py,sha256=mi4Be3a3GgMlOp6aLZMiWMyucdVMsFp5eth_lkDuVY8,223
+lsms_library/__init__.py,sha256=BXz5Xm1FW_0Ebo9NCa05QBhg4-LyntFUx1vI78ILn-E,207
 lsms_library/categorical_mapping/ai_agent.py,sha256=uN4DZmpeLyl3E03AS-50Acb4bjNhL5BByHIZwbxtwfw,6268
 lsms_library/categorical_mapping/categorical_mapping_helper.py,sha256=P6vHZf2vdXPmIr-FcidikaJZFtp025cRAMA2lBG_nMo,5310
 lsms_library/categorical_mapping/spelling.yml,sha256=c5n0WudZZ3DHzG9dhi6-jzfUt9f29op6jvHyYavPPCI,20
 lsms_library/contributing.org,sha256=KkW9ioEh6snUP5sEbSl42nhjfc-pr2rcd0F4NAd7tkU,7564
+lsms_library/countries/.dvc/.gitignore,sha256=zaP8GkzpZZyxmBi7Bl7ujFJxeVSE9J8xTKA1e02uxu8,26
+lsms_library/countries/.dvc/config,sha256=oWXrcncknTjZRLXS0XcHmaJB0FX6DZNgkRdgY6dOVqc,388
+lsms_library/countries/.dvc/plots/confusion.json,sha256=jUW3NJJZlg4e-CFa4s8hEEvqnsWpLVGt_3cgBwt9iqE,740
+lsms_library/countries/.dvc/plots/default.json,sha256=beLplVC3KKggxiinNrnAS74ghDY4ZgWU0lGiFVuzfzU,677
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