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aidenlab / straw

Extract data quickly from Juicebox via straw
MIT License
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Can't install hic-straw with pip in conda #112

Closed mozesjacobs closed 2 years ago

mozesjacobs commented 2 years ago

Describe the bug When I try to install the package using a conda environment, it doesn't seem to work. I get an error related to curl/curl.h. It has something to do with the c package, I think.

To Reproduce Steps to reproduce the behavior:

Using environment.yml file

  1. Use this file as a conda environment: https://github.com/Noble-Lab/pastis-protocol/blob/main/environment.yml2.
  2. Run "conda env create -f environment.yml"

Expected behavior The installation fails with this error:

src/straw.cpp:34:10: fatal error: curl/curl.h: No such file or directory 34 | #include <curl/curl.h> | ^~~~~ compilation terminated. error: command '/net/noble/vol1/home/mozesj/anaconda3/envs/protocol/bin/x86_64-conda-linux-gnu-cc' failed with exit code 1 [end of output]

Desktop (please complete the following information):

Additional context When I remove the line that installs hic-straw line from the environment.yml file, the installation of the environment works, so something is happening when I make the environment include the environment.yml file.

sa501428 commented 2 years ago

Does it work if you also include curl in the environment? https://anaconda.org/conda-forge/curl

mozesjacobs commented 2 years ago

That fixed it!

mozesjacobs commented 2 years ago

Thank you!

liudonghua123 commented 2 years ago

I tried install curl via conda, but it still not works for me, maybe I need to configure some path env on my own system.

(plus) C:\Users\Liu.D.H>conda install -c conda-forge curl
Collecting package metadata (current_repodata.json): done
Solving environment: done

==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 4.13.0

Please update conda by running

    $ conda update -n base -c defaults conda

## Package Plan ##

  environment location: D:\apps\anaconda3\envs\plus

  added / updated specs:
    - curl

The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    ca-certificates-2022.6.15  |       h5b45459_0         188 KB  conda-forge
    curl-7.83.1                |       h789b8ee_0         134 KB  conda-forge
    krb5-1.19.3                |       hc8ab02b_0         852 KB  conda-forge
    libcurl-7.83.1             |       h789b8ee_0         303 KB  conda-forge
    libssh2-1.10.0             |       h9a1e1f7_3         228 KB  conda-forge
    libzlib-1.2.12             |       h8ffe710_2          68 KB  conda-forge
    openssl-3.0.5              |       h8ffe710_1         7.6 MB  conda-forge
    ------------------------------------------------------------
                                           Total:         9.3 MB

The following NEW packages will be INSTALLED:

  ca-certificates    conda-forge/win-64::ca-certificates-2022.6.15-h5b45459_0
  curl               conda-forge/win-64::curl-7.83.1-h789b8ee_0
  krb5               conda-forge/win-64::krb5-1.19.3-hc8ab02b_0
  libcurl            conda-forge/win-64::libcurl-7.83.1-h789b8ee_0
  libssh2            conda-forge/win-64::libssh2-1.10.0-h9a1e1f7_3
  libzlib            conda-forge/win-64::libzlib-1.2.12-h8ffe710_2
  openssl            conda-forge/win-64::openssl-3.0.5-h8ffe710_1

Proceed ([y]/n)?

Downloading and Extracting Packages
ca-certificates-2022 | 188 KB    | ############################################################################ | 100%
libssh2-1.10.0       | 228 KB    | ############################################################################ | 100%
libzlib-1.2.12       | 68 KB     | ############################################################################ | 100%
curl-7.83.1          | 134 KB    | ############################################################################ | 100%
openssl-3.0.5        | 7.6 MB    | ############################################################################ | 100%
libcurl-7.83.1       | 303 KB    | ############################################################################ | 100%
krb5-1.19.3          | 852 KB    | ############################################################################ | 100%
Preparing transaction: done
Verifying transaction: done
Executing transaction: done

(plus) C:\Users\Liu.D.H>python -m pip install hic-straw
Collecting hic-straw
  Using cached hic-straw-1.3.1.tar.gz (18 kB)
Requirement already satisfied: pybind11>=2.4 in d:\apps\anaconda3\envs\plus\lib\site-packages (from hic-straw) (2.10.0)
Building wheels for collected packages: hic-straw
  Building wheel for hic-straw (setup.py) ... error
  ERROR: Command errored out with exit status 1:
   command: 'D:\apps\anaconda3\envs\plus\python.exe' -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-bef4uj2w\\hic-straw_7b31c426ea0c418aa67ea3e5b4ac23b3\\setup.py'"'"'; __file__='"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-bef4uj2w\\hic-straw_7b31c426ea0c418aa67ea3e5b4ac23b3\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d 'C:\Users\LIUD~1.H\AppData\Local\Temp\pip-wheel-shc7hxpc'
       cwd: C:\Users\LIUD~1.H\AppData\Local\Temp\pip-install-bef4uj2w\hic-straw_7b31c426ea0c418aa67ea3e5b4ac23b3\
  Complete output (12 lines):
  running bdist_wheel
  running build
  running build_ext
  building 'hicstraw' extension
  creating build
  creating build\temp.win-amd64-3.6
  creating build\temp.win-amd64-3.6\Release
  creating build\temp.win-amd64-3.6\Release\src
  C:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\bin\HostX86\x64\cl.exe /c /nologo /Ox /W3 /GL /DNDEBUG /MD -ID:\apps\anaconda3\envs\plus\lib\site-packages\pybind11\include -ID:\apps\anaconda3\envs\plus\lib\site-packages\pybind11\include -ID:\apps\anaconda3\envs\plus\include -ID:\apps\anaconda3\envs\plus\include "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\include" "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\ATLMFC\include" "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Auxiliary\VS\include" "-IC:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\ucrt" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\um" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\shared" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\winrt" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\cppwinrt" "-IC:\Program Files (x86)\Windows Kits\NETFXSDK\4.8\include\um" /EHsc /Tpsrc/straw.cpp /Fobuild\temp.win-amd64-3.6\Release\src/straw.obj /EHsc /DVERSION_INFO=\"1.3.1\"
  straw.cpp
  src/straw.cpp(34): fatal error C1083: Cannot open include file: 'curl/curl.h': No such file or directory
  error: command 'C:\\Program Files\\Microsoft Visual Studio\\2022\\Community\\VC\\Tools\\MSVC\\14.33.31629\\bin\\HostX86\\x64\\cl.exe' failed with exit status 2
  ----------------------------------------
  ERROR: Failed building wheel for hic-straw
  Running setup.py clean for hic-straw
Failed to build hic-straw
Installing collected packages: hic-straw
    Running setup.py install for hic-straw ... error
    ERROR: Command errored out with exit status 1:
     command: 'D:\apps\anaconda3\envs\plus\python.exe' -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-bef4uj2w\\hic-straw_7b31c426ea0c418aa67ea3e5b4ac23b3\\setup.py'"'"'; __file__='"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-bef4uj2w\\hic-straw_7b31c426ea0c418aa67ea3e5b4ac23b3\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record 'C:\Users\LIUD~1.H\AppData\Local\Temp\pip-record-_rq3j1ds\install-record.txt' --single-version-externally-managed --compile --install-headers 'D:\apps\anaconda3\envs\plus\Include\hic-straw'
         cwd: C:\Users\LIUD~1.H\AppData\Local\Temp\pip-install-bef4uj2w\hic-straw_7b31c426ea0c418aa67ea3e5b4ac23b3\
    Complete output (12 lines):
    running install
    running build
    running build_ext
    building 'hicstraw' extension
    creating build
    creating build\temp.win-amd64-3.6
    creating build\temp.win-amd64-3.6\Release
    creating build\temp.win-amd64-3.6\Release\src
    C:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\bin\HostX86\x64\cl.exe /c /nologo /Ox /W3 /GL /DNDEBUG /MD -ID:\apps\anaconda3\envs\plus\lib\site-packages\pybind11\include -ID:\apps\anaconda3\envs\plus\lib\site-packages\pybind11\include -ID:\apps\anaconda3\envs\plus\include -ID:\apps\anaconda3\envs\plus\include "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\include" "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\ATLMFC\include" "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Auxiliary\VS\include" "-IC:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\ucrt" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\um" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\shared" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\winrt" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\cppwinrt" "-IC:\Program Files (x86)\Windows Kits\NETFXSDK\4.8\include\um" /EHsc /Tpsrc/straw.cpp /Fobuild\temp.win-amd64-3.6\Release\src/straw.obj /EHsc /DVERSION_INFO=\"1.3.1\"
    straw.cpp
    src/straw.cpp(34): fatal error C1083: Cannot open include file: 'curl/curl.h': No such file or directory
    error: command 'C:\\Program Files\\Microsoft Visual Studio\\2022\\Community\\VC\\Tools\\MSVC\\14.33.31629\\bin\\HostX86\\x64\\cl.exe' failed with exit status 2
    ----------------------------------------
ERROR: Command errored out with exit status 1: 'D:\apps\anaconda3\envs\plus\python.exe' -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-bef4uj2w\\hic-straw_7b31c426ea0c418aa67ea3e5b4ac23b3\\setup.py'"'"'; __file__='"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-bef4uj2w\\hic-straw_7b31c426ea0c418aa67ea3e5b4ac23b3\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record 'C:\Users\LIUD~1.H\AppData\Local\Temp\pip-record-_rq3j1ds\install-record.txt' --single-version-externally-managed --compile --install-headers 'D:\apps\anaconda3\envs\plus\Include\hic-straw' Check the logs for full command output.

(plus) C:\Users\Liu.D.H>
liudonghua123 commented 2 years ago

If I set INCLUDE env via set INCLUDE=%INCLUDE%;D:\apps\anaconda3\Library\include, this error disappeared, but it failed with other errors.

(plus) C:\Users\Liu.D.H>set INCLUDE=%INCLUDE%;D:\apps\anaconda3\Library\include

(plus) C:\Users\Liu.D.H>python -m pip install hic-straw
Collecting hic-straw
  Using cached hic-straw-1.3.1.tar.gz (18 kB)
Requirement already satisfied: pybind11>=2.4 in d:\apps\anaconda3\envs\plus\lib\site-packages (from hic-straw) (2.10.0)
Building wheels for collected packages: hic-straw
  Building wheel for hic-straw (setup.py) ... error
  ERROR: Command errored out with exit status 1:
   command: 'D:\apps\anaconda3\envs\plus\python.exe' -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-v98k59i4\\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\\setup.py'"'"'; __file__='"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-v98k59i4\\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d 'C:\Users\LIUD~1.H\AppData\Local\Temp\pip-wheel-_y63_5wj'
       cwd: C:\Users\LIUD~1.H\AppData\Local\Temp\pip-install-v98k59i4\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\
  Complete output (35 lines):
  running bdist_wheel
  running build
  running build_ext
  building 'hicstraw' extension
  creating build
  creating build\temp.win-amd64-3.6
  creating build\temp.win-amd64-3.6\Release
  creating build\temp.win-amd64-3.6\Release\src
  C:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\bin\HostX86\x64\cl.exe /c /nologo /Ox /W3 /GL /DNDEBUG /MD -ID:\apps\anaconda3\envs\plus\lib\site-packages\pybind11\include -ID:\apps\anaconda3\envs\plus\lib\site-packages\pybind11\include -ID:\apps\anaconda3\envs\plus\include -ID:\apps\anaconda3\envs\plus\include "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\include" "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\ATLMFC\include" "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Auxiliary\VS\include" "-IC:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\ucrt" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\um" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\shared" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\winrt" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\cppwinrt" "-IC:\Program Files (x86)\Windows Kits\NETFXSDK\4.8\include\um" -I%INCLUDE% -ID:\apps\anaconda3\Library\include /EHsc /Tpsrc/straw.cpp /Fobuild\temp.win-amd64-3.6\Release\src/straw.obj /EHsc /DVERSION_INFO=\"1.3.1\"
  straw.cpp
  C:\Users\Liu.D.H\AppData\Local\Temp\pip-install-v98k59i4\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\src\straw.h(74): warning C4244: 'argument': conversion from '__int64' to 'int', possible loss of data
  src/straw.cpp(338): warning C4267: 'initializing': conversion from 'size_t' to 'int32_t', possible loss of data
  src/straw.cpp(340): warning C4267: '=': conversion from 'size_t' to 'int32_t', possible loss of data
  src/straw.cpp(1023): warning C4244: 'return': conversion from 'uint64_t' to 'long', possible loss of data
  src/straw.cpp(1286): warning C4244: 'argument': conversion from 'int64_t' to 'int32_t', possible loss of data
  src/straw.cpp(1396): warning C4244: 'initializing': conversion from 'int64_t' to 'int32_t', possible loss of data
  src/straw.cpp(1397): warning C4244: 'initializing': conversion from 'int64_t' to 'int32_t', possible loss of data
  src/straw.cpp(1398): error C2131: expression did not evaluate to a constant
  src/straw.cpp(1398): note: failure was caused by a read of a variable outside its lifetime
  src/straw.cpp(1398): note: see usage of 'numRows'
  src/straw.cpp(1398): error C2131: expression did not evaluate to a constant
  src/straw.cpp(1398): note: failure was caused by a read of a variable outside its lifetime
  src/straw.cpp(1398): note: see usage of 'numCols'
  src/straw.cpp(1401): error C3863: array type 'float [numRows][numCols]' is not assignable
  src/straw.cpp(1407): warning C4244: 'initializing': conversion from 'int64_t' to 'int32_t', possible loss of data
  src/straw.cpp(1408): warning C4244: 'initializing': conversion from 'int64_t' to 'int32_t', possible loss of data
  src/straw.cpp(1410): error C3863: array type 'float [numRows][numCols]' is not assignable
  src/straw.cpp(1413): warning C4244: '=': conversion from 'int64_t' to 'int32_t', possible loss of data
  src/straw.cpp(1414): warning C4244: '=': conversion from 'int64_t' to 'int32_t', possible loss of data
  src/straw.cpp(1416): error C3863: array type 'float [numRows][numCols]' is not assignable
  src/straw.cpp(1526): error C2131: expression did not evaluate to a constant
  src/straw.cpp(1526): note: failure was caused by a read of a variable outside its lifetime
  src/straw.cpp(1526): note: see usage of 'this'
  src/straw.cpp(1530): error C3863: array type 'chromosome ['function']' is not assignable
  error: command 'C:\\Program Files\\Microsoft Visual Studio\\2022\\Community\\VC\\Tools\\MSVC\\14.33.31629\\bin\\HostX86\\x64\\cl.exe' failed with exit status 2
  ----------------------------------------
  ERROR: Failed building wheel for hic-straw
  Running setup.py clean for hic-straw
Failed to build hic-straw
Installing collected packages: hic-straw
    Running setup.py install for hic-straw ... error
    ERROR: Command errored out with exit status 1:
     command: 'D:\apps\anaconda3\envs\plus\python.exe' -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-v98k59i4\\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\\setup.py'"'"'; __file__='"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-v98k59i4\\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record 'C:\Users\LIUD~1.H\AppData\Local\Temp\pip-record-2o7hupvq\install-record.txt' --single-version-externally-managed --compile --install-headers 'D:\apps\anaconda3\envs\plus\Include\hic-straw'
         cwd: C:\Users\LIUD~1.H\AppData\Local\Temp\pip-install-v98k59i4\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\
    Complete output (35 lines):
    running install
    running build
    running build_ext
    building 'hicstraw' extension
    creating build
    creating build\temp.win-amd64-3.6
    creating build\temp.win-amd64-3.6\Release
    creating build\temp.win-amd64-3.6\Release\src
    C:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\bin\HostX86\x64\cl.exe /c /nologo /Ox /W3 /GL /DNDEBUG /MD -ID:\apps\anaconda3\envs\plus\lib\site-packages\pybind11\include -ID:\apps\anaconda3\envs\plus\lib\site-packages\pybind11\include -ID:\apps\anaconda3\envs\plus\include -ID:\apps\anaconda3\envs\plus\include "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\include" "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14.33.31629\ATLMFC\include" "-IC:\Program Files\Microsoft Visual Studio\2022\Community\VC\Auxiliary\VS\include" "-IC:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\ucrt" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\um" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\shared" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\winrt" "-IC:\Program Files (x86)\Windows Kits\10\\include\10.0.19041.0\\cppwinrt" "-IC:\Program Files (x86)\Windows Kits\NETFXSDK\4.8\include\um" -I%INCLUDE% -ID:\apps\anaconda3\Library\include /EHsc /Tpsrc/straw.cpp /Fobuild\temp.win-amd64-3.6\Release\src/straw.obj /EHsc /DVERSION_INFO=\"1.3.1\"
    straw.cpp
    C:\Users\Liu.D.H\AppData\Local\Temp\pip-install-v98k59i4\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\src\straw.h(74): warning C4244: 'argument': conversion from '__int64' to 'int', possible loss of data
    src/straw.cpp(338): warning C4267: 'initializing': conversion from 'size_t' to 'int32_t', possible loss of data
    src/straw.cpp(340): warning C4267: '=': conversion from 'size_t' to 'int32_t', possible loss of data
    src/straw.cpp(1023): warning C4244: 'return': conversion from 'uint64_t' to 'long', possible loss of data
    src/straw.cpp(1286): warning C4244: 'argument': conversion from 'int64_t' to 'int32_t', possible loss of data
    src/straw.cpp(1396): warning C4244: 'initializing': conversion from 'int64_t' to 'int32_t', possible loss of data
    src/straw.cpp(1397): warning C4244: 'initializing': conversion from 'int64_t' to 'int32_t', possible loss of data
    src/straw.cpp(1398): error C2131: expression did not evaluate to a constant
    src/straw.cpp(1398): note: failure was caused by a read of a variable outside its lifetime
    src/straw.cpp(1398): note: see usage of 'numRows'
    src/straw.cpp(1398): error C2131: expression did not evaluate to a constant
    src/straw.cpp(1398): note: failure was caused by a read of a variable outside its lifetime
    src/straw.cpp(1398): note: see usage of 'numCols'
    src/straw.cpp(1401): error C3863: array type 'float [numRows][numCols]' is not assignable
    src/straw.cpp(1407): warning C4244: 'initializing': conversion from 'int64_t' to 'int32_t', possible loss of data
    src/straw.cpp(1408): warning C4244: 'initializing': conversion from 'int64_t' to 'int32_t', possible loss of data
    src/straw.cpp(1410): error C3863: array type 'float [numRows][numCols]' is not assignable
    src/straw.cpp(1413): warning C4244: '=': conversion from 'int64_t' to 'int32_t', possible loss of data
    src/straw.cpp(1414): warning C4244: '=': conversion from 'int64_t' to 'int32_t', possible loss of data
    src/straw.cpp(1416): error C3863: array type 'float [numRows][numCols]' is not assignable
    src/straw.cpp(1526): error C2131: expression did not evaluate to a constant
    src/straw.cpp(1526): note: failure was caused by a read of a variable outside its lifetime
    src/straw.cpp(1526): note: see usage of 'this'
    src/straw.cpp(1530): error C3863: array type 'chromosome ['function']' is not assignable
    error: command 'C:\\Program Files\\Microsoft Visual Studio\\2022\\Community\\VC\\Tools\\MSVC\\14.33.31629\\bin\\HostX86\\x64\\cl.exe' failed with exit status 2
    ----------------------------------------
ERROR: Command errored out with exit status 1: 'D:\apps\anaconda3\envs\plus\python.exe' -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-v98k59i4\\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\\setup.py'"'"'; __file__='"'"'C:\\Users\\LIUD~1.H\\AppData\\Local\\Temp\\pip-install-v98k59i4\\hic-straw_1f7c176d69e440a5a81ff01798d0d6ac\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record 'C:\Users\LIUD~1.H\AppData\Local\Temp\pip-record-2o7hupvq\install-record.txt' --single-version-externally-managed --compile --install-headers 'D:\apps\anaconda3\envs\plus\Include\hic-straw' Check the logs for full command output.

(plus) C:\Users\Liu.D.H>
fazhang-master commented 11 months ago

I have the same question. Has it been resolved?