Cannot install nlm-ingestor

[Denis-Kazakov]

Linux Mint. I tried to run !pip install nlm-ingestor in a notebook or pip install nlm-ingestor in a terminal but it always fails. Below the output that I get in an existing conda environment. Looks like it has issues with pandas. I tried a new clean conda environment without other packages, it then has issues with thinc, even if I install the latest version of thinc.

Collecting nlm-ingestor
Using cached nlm_ingestor-0.1.7-py3-none-any.whl.metadata (8.4 kB)
Collecting flask (from nlm-ingestor)
Using cached flask-3.1.0-py3-none-any.whl.metadata (2.7 kB)
Collecting flask-restful (from nlm-ingestor)
Using cached Flask_RESTful-0.3.10-py2.py3-none-any.whl.metadata (1.0 kB)
Collecting flask-jsonpify (from nlm-ingestor)
Using cached Flask-Jsonpify-1.5.0.tar.gz (3.0 kB)
Preparing metadata (setup.py) ... done
Collecting gunicorn (from nlm-ingestor)
Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
Collecting werkzeug (from nlm-ingestor)
Using cached werkzeug-3.1.3-py3-none-any.whl.metadata (3.7 kB)
Collecting tika (from nlm-ingestor)
Using cached tika-2.6.0.tar.gz (27 kB)
Preparing metadata (setup.py) ... done
Collecting bs4 (from nlm-ingestor)
Using cached bs4-0.0.2-py2.py3-none-any.whl.metadata (411 bytes)
Collecting nltk (from nlm-ingestor)
Using cached nltk-3.9.1-py3-none-any.whl.metadata (2.9 kB)
Collecting python-magic (from nlm-ingestor)
Using cached python_magic-0.4.27-py2.py3-none-any.whl.metadata (5.8 kB)
Requirement already satisfied: numpy in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from nlm-ingestor) (1.26.4)
Requirement already satisfied: tqdm in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from nlm-ingestor) (4.67.1)
Collecting symspellpy>=6.7.0 (from nlm-ingestor)
Using cached symspellpy-6.7.8-py3-none-any.whl.metadata (3.9 kB)
Requirement already satisfied: pandas>=1.2.4 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from nlm-ingestor) (2.2.3)
Collecting mistune==2.0.3 (from nlm-ingestor)
Using cached mistune-2.0.3-py2.py3-none-any.whl.metadata (1.5 kB)
Collecting lxml==4.9.1 (from nlm-ingestor)
Using cached lxml-4.9.1.tar.gz (3.4 MB)
Preparing metadata (setup.py) ... done
Collecting unidecode (from nlm-ingestor)
Using cached Unidecode-1.3.8-py3-none-any.whl.metadata (13 kB)
Collecting nlm-utils (from nlm-ingestor)
Using cached nlm_utils-0.1.2-py3-none-any.whl.metadata (5.5 kB)
Requirement already satisfied: python-dateutil>=2.8.2 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from pandas>=1.2.4->nlm-ingestor) (2.9.0.post0)
Requirement already satisfied: pytz>=2020.1 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from pandas>=1.2.4->nlm-ingestor) (2024.2)
Requirement already satisfied: tzdata>=2022.7 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from pandas>=1.2.4->nlm-ingestor) (2024.2)
Collecting editdistpy>=0.1.3 (from symspellpy>=6.7.0->nlm-ingestor)
Using cached editdistpy-0.1.5-cp312-cp312-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
Requirement already satisfied: beautifulsoup4 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from bs4->nlm-ingestor) (4.12.3)
Requirement already satisfied: Jinja2>=3.1.2 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from flask->nlm-ingestor) (3.1.4)
Collecting itsdangerous>=2.2 (from flask->nlm-ingestor)
Using cached itsdangerous-2.2.0-py3-none-any.whl.metadata (1.9 kB)
Requirement already satisfied: click>=8.1.3 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from flask->nlm-ingestor) (8.1.7)
Collecting blinker>=1.9 (from flask->nlm-ingestor)
Using cached blinker-1.9.0-py3-none-any.whl.metadata (1.6 kB)
Requirement already satisfied: MarkupSafe>=2.1.1 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from werkzeug->nlm-ingestor) (3.0.2)
Collecting aniso8601>=0.82 (from flask-restful->nlm-ingestor)
Using cached aniso8601-9.0.1-py2.py3-none-any.whl.metadata (23 kB)
Requirement already satisfied: six>=1.3.0 in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from flask-restful->nlm-ingestor) (1.16.0)
Requirement already satisfied: packaging in /home/denis/miniconda3/envs/langchain/lib/python3.12/site-packages (from gunicorn->nlm-ingestor) (24.2)
Collecting aiohttp==3.8.5 (from nlm-utils->nlm-ingestor)
Using cached aiohttp-3.8.5.tar.gz (7.4 MB)
Installing build dependencies ... done
Getting requirements to build wheel ... done
Preparing metadata (pyproject.toml) ... done
Collecting dateparser (from nlm-utils->nlm-ingestor)
Using cached dateparser-1.2.0-py2.py3-none-any.whl.metadata (28 kB)
Collecting dnspython==2.1.0 (from nlm-utils->nlm-ingestor)
Using cached dnspython-2.1.0-py3-none-any.whl.metadata (1.9 kB)
Collecting word2number (from nlm-utils->nlm-ingestor)
Using cached word2number-1.1.zip (9.7 kB)
Preparing metadata (setup.py) ... done
Collecting minio==7.1.0 (from nlm-utils->nlm-ingestor)
Using cached minio-7.1.0-py3-none-any.whl.metadata (4.2 kB)
Collecting money==1.3.0 (from nlm-utils->nlm-ingestor)
Using cached money-1.3.0.tar.gz (18 kB)
Preparing metadata (setup.py) ... done
Collecting msgpack==1.0.2 (from nlm-utils->nlm-ingestor)
Using cached msgpack-1.0.2.tar.gz (123 kB)
Preparing metadata (setup.py) ... done
Collecting nltk (from nlm-ingestor)
Using cached nltk-3.6.2-py3-none-any.whl.metadata (2.9 kB)
INFO: pip is looking at multiple versions of nlm-utils to determine which version is compatible with other requirements. This could take a while.
Collecting nlm-utils (from nlm-ingestor)
Using cached nlm_utils-0.1.1-py3-none-any.whl.metadata (5.4 kB)
Collecting pandas>=1.2.4 (from nlm-ingestor)
Using cached pandas-2.2.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
Using cached pandas-2.2.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
Using cached pandas-2.2.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
INFO: pip is still looking at multiple versions of nlm-utils to determine which version is compatible with other requirements. This could take a while.
Using cached pandas-2.2.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
Using cached pandas-2.1.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (18 kB)
Using cached pandas-2.1.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (18 kB)
INFO: This is taking longer than usual. You might need to provide the dependency resolver with stricter constraints to reduce runtime. See https://pip.pypa.io/warnings/backtracking for guidance. If you want to abort this run, press Ctrl + C.
Using cached pandas-2.1.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (18 kB)
Using cached pandas-2.1.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (18 kB)
Using cached pandas-2.1.0.tar.gz (4.3 MB)
Installing build dependencies ... done
Getting requirements to build wheel ... done
Installing backend dependencies ... done
Preparing metadata (pyproject.toml) ... error
error: subprocess-exited-with-error

× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [107 lines of output]
+ meson setup /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/.mesonpy-yp756y_1/build -Dbuildtype=release -Db_ndebug=if-release -Db_vscrt=md --vsenv --native-file=/tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/.mesonpy-yp756y_1/build/meson-python-native-file.ini
The Meson build system
Version: 1.0.1
Source dir: /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f
Build dir: /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/.mesonpy-yp756y_1/build
Build type: native build
Project name: pandas
Project version: 2.1.0
C compiler for the host machine: cc (gcc 11.4.0 "cc (Ubuntu 11.4.0-1ubuntu122.04) 11.4.0")
C linker for the host machine: cc ld.bfd 2.38
C++ compiler for the host machine: c++ (gcc 11.4.0 "c++ (Ubuntu 11.4.0-1ubuntu122.04) 11.4.0")
C++ linker for the host machine: c++ ld.bfd 2.38
Cython compiler for the host machine: cython (cython 0.29.37)
Host machine cpu family: x86_64
Host machine cpu: x86_64
Program python found: YES (/home/denis/miniconda3/envs/langchain/bin/python3.12)
Found pkg-config: /usr/bin/pkg-config (0.29.2)
Build targets in project: 53

  pandas 2.1.0
  
    User defined options
      Native files: /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/.mesonpy-yp756y_1/build/meson-python-native-file.ini
      buildtype   : release
      b_ndebug    : if-release
      b_vscrt     : md
  
  Found ninja-1.11.1.git.kitware.jobserver-1 at /tmp/pip-build-env-5_yw6dxk/normal/bin/ninja
  + /tmp/pip-build-env-5_yw6dxk/normal/bin/ninja
  [1/151] Generating pandas/_libs/index_class_helper_pxi with a custom command
  [2/151] Generating pandas/_libs/algos_common_helper_pxi with a custom command
  [3/151] Generating pandas/_libs/hashtable_class_helper_pxi with a custom command
  [4/151] Generating pandas/_libs/intervaltree_helper_pxi with a custom command
  [5/151] Generating pandas/_libs/algos_take_helper_pxi with a custom command
  [6/151] Generating pandas/_libs/khash_primitive_helper_pxi with a custom command
  [7/151] Generating pandas/_libs/sparse_op_helper_pxi with a custom command
  [8/151] Generating pandas/_libs/hashtable_func_helper_pxi with a custom command
  [9/151] Generating pandas/__init__.py with a custom command
  [10/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/base.pyx
  [11/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/ccalendar.pyx
  [12/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/np_datetime.pyx
  [13/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/dtypes.pyx
  [14/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/nattype.pyx
  [15/151] Compiling C object pandas/_libs/tslibs/base.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_base.pyx.c.o
  [16/151] Linking target pandas/_libs/tslibs/base.cpython-312-x86_64-linux-gnu.so
  [17/151] Compiling C object pandas/_libs/tslibs/parsing.cpython-312-x86_64-linux-gnu.so.p/.._src_parser_tokenizer.c.o
  [18/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/arrays.pyx
  [19/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/timezones.pyx
  [20/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/indexing.pyx
  [21/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/hashing.pyx
  [22/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/parsing.pyx
  [23/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/fields.pyx
  [24/151] Compiling C object pandas/_libs/tslibs/ccalendar.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_ccalendar.pyx.c.o
  [25/151] Linking target pandas/_libs/tslibs/ccalendar.cpython-312-x86_64-linux-gnu.so
  [26/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/strptime.pyx
  [27/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/vectorized.pyx
  [28/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/conversion.pyx
  [29/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/timedeltas.pyx
  [30/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/timestamps.pyx
  [31/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/tzconversion.pyx
  [32/151] Compiling C object pandas/_libs/indexing.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_indexing.pyx.c.o
  [33/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/offsets.pyx
  [34/151] Linking target pandas/_libs/indexing.cpython-312-x86_64-linux-gnu.so
  [35/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/tslibs/period.pyx
  [36/151] Compiling C object pandas/_libs/tslibs/np_datetime.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_np_datetime.pyx.c.o
  [37/151] Linking target pandas/_libs/tslibs/np_datetime.cpython-312-x86_64-linux-gnu.so
  [38/151] Compiling C object pandas/_libs/arrays.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_arrays.pyx.c.o
  [39/151] Linking target pandas/_libs/arrays.cpython-312-x86_64-linux-gnu.so
  [40/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/internals.pyx
  [41/151] Compiling C object pandas/_libs/tslibs/dtypes.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_dtypes.pyx.c.o
  [42/151] Linking target pandas/_libs/tslibs/dtypes.cpython-312-x86_64-linux-gnu.so
  [43/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/index.pyx
  [44/151] Compiling C object pandas/_libs/tslibs/nattype.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_nattype.pyx.c.o
  [45/151] Compiling C object pandas/_libs/lib.cpython-312-x86_64-linux-gnu.so.p/src_parser_tokenizer.c.o
  [46/151] Linking target pandas/_libs/tslibs/nattype.cpython-312-x86_64-linux-gnu.so
  [47/151] Compiling C object pandas/_libs/pandas_datetime.cpython-312-x86_64-linux-gnu.so.p/src_vendored_numpy_datetime_np_datetime.c.o
  FAILED: pandas/_libs/pandas_datetime.cpython-312-x86_64-linux-gnu.so.p/src_vendored_numpy_datetime_np_datetime.c.o
  cc -Ipandas/_libs/pandas_datetime.cpython-312-x86_64-linux-gnu.so.p -Ipandas/_libs -I../../pandas/_libs -I../../../../pip-build-env-5_yw6dxk/overlay/lib/python3.12/site-packages/numpy/_core/include -I../../pandas/_libs/include -I/home/denis/miniconda3/envs/langchain/include/python3.12 -fvisibility=hidden -fdiagnostics-color=always -DNDEBUG -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c99 -O3 -DNPY_NO_DEPRECATED_API=0 -DNPY_TARGET_VERSION=NPY_1_21_API_VERSION -fPIC -MD -MQ pandas/_libs/pandas_datetime.cpython-312-x86_64-linux-gnu.so.p/src_vendored_numpy_datetime_np_datetime.c.o -MF pandas/_libs/pandas_datetime.cpython-312-x86_64-linux-gnu.so.p/src_vendored_numpy_datetime_np_datetime.c.o.d -o pandas/_libs/pandas_datetime.cpython-312-x86_64-linux-gnu.so.p/src_vendored_numpy_datetime_np_datetime.c.o -c ../../pandas/_libs/src/vendored/numpy/datetime/np_datetime.c
  ../../pandas/_libs/src/vendored/numpy/datetime/np_datetime.c: In function ‘get_datetime_metadata_from_dtype’:
  ../../pandas/_libs/src/vendored/numpy/datetime/np_datetime.c:946:52: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘c_metadata’
    946 |     return (((PyArray_DatetimeDTypeMetaData *)dtype->c_metadata)->meta);
        |                                                    ^~
  ../../pandas/_libs/src/vendored/numpy/datetime/np_datetime.c:947:1: warning: control reaches end of non-void function [-Wreturn-type]
    947 | }
        | ^
  [48/151] Compiling C object pandas/_libs/hashing.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_hashing.pyx.c.o
  [49/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/missing.pyx
  [50/151] Compiling C object pandas/_libs/tslibs/timezones.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_timezones.pyx.c.o
  [51/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/lib.pyx
  [52/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/interval.pyx
  [53/151] Compiling C object pandas/_libs/tslibs/conversion.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_conversion.pyx.c.o
  [54/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/hashtable.pyx
  [55/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/groupby.pyx
  [56/151] Compiling C object pandas/_libs/tslibs/vectorized.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_vectorized.pyx.c.o
  [57/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/algos.pyx
  [58/151] Compiling C object pandas/_libs/tslibs/fields.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_fields.pyx.c.o
  [59/151] Compiling C object pandas/_libs/tslibs/tzconversion.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_tzconversion.pyx.c.o
  [60/151] Compiling Cython source /tmp/pip-install-i098cnnr/pandas_06b681c6c3f9456ab03597e6eb58aa4f/pandas/_libs/join.pyx
  [61/151] Compiling C object pandas/_libs/tslibs/strptime.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_strptime.pyx.c.o
  [62/151] Compiling C object pandas/_libs/tslibs/parsing.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_parsing.pyx.c.o
  [63/151] Compiling C object pandas/_libs/internals.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_internals.pyx.c.o
  [64/151] Compiling C object pandas/_libs/tslibs/timedeltas.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_timedeltas.pyx.c.o
  [65/151] Compiling C object pandas/_libs/tslibs/period.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_period.pyx.c.o
  [66/151] Compiling C object pandas/_libs/tslibs/timestamps.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_timestamps.pyx.c.o
  [67/151] Compiling C object pandas/_libs/tslibs/offsets.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_tslibs_offsets.pyx.c.o
  [68/151] Compiling C object pandas/_libs/index.cpython-312-x86_64-linux-gnu.so.p/meson-generated_pandas__libs_index.pyx.c.o
  ninja: build stopped: subcommand failed.
  [end of output]

note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed

× Encountered error while generating package metadata.
╰─> See above for output.

note: This is an issue with the package mentioned above, not pip.
hint: See above for details.

[siddhanttt2506]

any updates
not able to solve it

[lav-sharma-cerelabs]

Hello @Denis-Kazakov, So I have tried this with python3.9 and also the docker image that they have either should work. You can find the below steps which I have followed.

NLM Ingestor Setup

Python (Locally)

1. Create a python environment

python3.9 -m venv nlm-ingestor

2. Install the required python packages

pip install nlm-ingestor llmsherpa ipython

3. Additionally run the below code for installing nltk

import nltk
nltk.download('punkt')
nltk.download('stopwords')

4. Run the ingestor

python -m nlm_ingestor.ingestion_daemon

5. Expected output

INFO:__main__:Starting ingestor service..
 * Serving Flask app '__main__'
 * Debug mode: off
INFO:werkzeug:WARNING: This is a development server. Do not use it in a production deployment. Use a production WSGI server instead.
 * Running on all addresses (0.0.0.0)
 * Running on http://127.0.0.1:5001
 * Running on http://10.10.1.62:5001
INFO:werkzeug:Press CTRL+C to quit

Docker

1. Pull the docker image

docker pull ghcr.io/nlmatics/nlm-ingestor:latest

2. Run the docker image mapping the port 5001 to port of your choice

docker run -p 5001:5001 ghcr.io/nlmatics/nlm-ingestor:latest

3. Expected output

 * Serving Flask app '__main__'
 * Debug mode: off
WARNING: This is a development server. Do not use it in a production deployment. Use a production WSGI server instead.
 * Running on all addresses (0.0.0.0)
 * Running on http://127.0.0.1:5001
 * Running on http://172.17.0.2:5001
Press CTRL+C to quit