Comments (7)
agriggio
commented on August 27, 2024
1
Hi, and thanks for the report!
are you using python3 by any chance? I didn't have time to make the script python3 compatible yet, so that might be the culprit. If so, can you try testing with python2.7 and see if the problem persists?
from make_arq.
agriggio
commented on August 27, 2024
1
I suggest you try pyenv to manage multiple python environments, without messing up with the system. Looking at the above error messages, it's clear that pip2 is still trying to use python3.
I will try to update the code to python3 asap
from make_arq.
agriggio
commented on August 27, 2024
1
commit ceb4602 should fix this, can you please confirm when you have the chance?
from make_arq.
abrock
commented on August 27, 2024
I managed to upload the images I tried to combine:
http://129.206.118.30/pixelshift.zip (~2GB)
from make_arq.
abrock
commented on August 27, 2024
Thank you for the quick response. Indeed, I use python3.
I tried to run the tool with python2 but it complains about the tifffile module missing:
python2 make_arq.py AR400274.ARW AR400275.ARW AR400276.ARW AR400277.ARW -o p2.arq
Traceback (most recent call last):
File "make_arq.py", line 22, in <module>
import tifffile
ImportError: No module named tifffile
TLDR: No matter what I tried, I can't get python2 to find the tifffile module.
I used aptitude to install the packages tifffile, python-imageio, no change. I used pip2 to install imageio, no change.
I tried to install tifffile using pip2 but that fails with a missing file (one which actually is installed on my machine)
pip2 install tifffile
Collecting tifffile
Using cached https://files.pythonhosted.org/packages/17/e8/76979051a2a15b23e2652a3cdeb7d3dfec518c54138bd0f8b5a5ef2c267a/tifffile-2020.2.16-py3-none-any.whl
Requirement already satisfied: numpy>=1.15.1 in /usr/lib/python3/dist-packages (from tifffile) (1.17.4)
Collecting imagecodecs>=2020.1.31 (from tifffile)
Using cached https://files.pythonhosted.org/packages/75/95/3699360d15e5e5d450bbd16ea554fb185117947e76fc772078c4f59ae1c1/imagecodecs-2020.2.18.tar.gz
Building wheels for collected packages: imagecodecs
Running setup.py bdist_wheel for imagecodecs ... error
Complete output from command /usr/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-zdg75dz2/imagecodecs/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" bdist_wheel -d /tmp/pip-wheel-tpew8fmm --python-tag cp37:
running bdist_wheel
running build
running build_py
creating build
creating build/lib.linux-x86_64-3.7
creating build/lib.linux-x86_64-3.7/imagecodecs
copying imagecodecs/__init__.py -> build/lib.linux-x86_64-3.7/imagecodecs
copying imagecodecs/imagecodecs.py -> build/lib.linux-x86_64-3.7/imagecodecs
copying imagecodecs/_imagecodecs.py -> build/lib.linux-x86_64-3.7/imagecodecs
copying imagecodecs/__main__.py -> build/lib.linux-x86_64-3.7/imagecodecs
creating build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-lz4 -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-charls -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libpng -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libaec -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-giflib -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-liblzma -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-bitshuffle -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libmng -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-blosc -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-zopfli -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-brunsli -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-zlib -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libwebp -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-lcms2 -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-bzip2 -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-fastlz -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-zstd -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-openjpeg -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-jpg_0xc3 -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-lzf -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-jpeg -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-jxrlib -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libjpeg-turbo -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libtiff -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-brotli -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-zfp -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-snappy -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
running build_ext
building 'imagecodecs._aec' extension
creating build/temp.linux-x86_64-3.7
creating build/temp.linux-x86_64-3.7/imagecodecs
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_aec.c -o build/temp.linux-x86_64-3.7/imagecodecs/_aec.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_aec.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_aec.o -L/usr/local/lib -lm -laec -o build/lib.linux-x86_64-3.7/imagecodecs/_aec.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._bitshuffle' extension
creating build/temp.linux-x86_64-3.7/bitshuffle-0.3.5
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -Ibitshuffle-0.3.5 -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_bitshuffle.c -o build/temp.linux-x86_64-3.7/imagecodecs/_bitshuffle.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_bitshuffle.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -Ibitshuffle-0.3.5 -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c bitshuffle-0.3.5/bitshuffle_core.c -o build/temp.linux-x86_64-3.7/bitshuffle-0.3.5/bitshuffle_core.o
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -Ibitshuffle-0.3.5 -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c bitshuffle-0.3.5/iochain.c -o build/temp.linux-x86_64-3.7/bitshuffle-0.3.5/iochain.o
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_bitshuffle.o build/temp.linux-x86_64-3.7/bitshuffle-0.3.5/bitshuffle_core.o build/temp.linux-x86_64-3.7/bitshuffle-0.3.5/iochain.o -L/usr/local/lib -lm -o build/lib.linux-x86_64-3.7/imagecodecs/_bitshuffle.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._blosc' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_blosc.c -o build/temp.linux-x86_64-3.7/imagecodecs/_blosc.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_blosc.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_blosc.o -L/usr/local/lib -lm -lblosc -o build/lib.linux-x86_64-3.7/imagecodecs/_blosc.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._brotli' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_brotli.c -o build/temp.linux-x86_64-3.7/imagecodecs/_brotli.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_brotli.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_brotli.o -L/usr/local/lib -lm -lbrotlienc -lbrotlidec -lbrotlicommon -o build/lib.linux-x86_64-3.7/imagecodecs/_brotli.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._bz2' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_bz2.c -o build/temp.linux-x86_64-3.7/imagecodecs/_bz2.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_bz2.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_bz2.o -L/usr/local/lib -lm -lbz2 -o build/lib.linux-x86_64-3.7/imagecodecs/_bz2.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._gif' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_gif.c -o build/temp.linux-x86_64-3.7/imagecodecs/_gif.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_gif.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_gif.o -L/usr/local/lib -lm -lgif -o build/lib.linux-x86_64-3.7/imagecodecs/_gif.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._imcd' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_imcd.c -o build/temp.linux-x86_64-3.7/imagecodecs/_imcd.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_imcd.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/imcd.c -o build/temp.linux-x86_64-3.7/imagecodecs/imcd.o
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_imcd.o build/temp.linux-x86_64-3.7/imagecodecs/imcd.o -L/usr/local/lib -lm -o build/lib.linux-x86_64-3.7/imagecodecs/_imcd.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._jpeg2k' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DOPJ_HAVE_LIBLCMS2=1 -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_jpeg2k.c -o build/temp.linux-x86_64-3.7/imagecodecs/_jpeg2k.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_jpeg2k.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
imagecodecs/_jpeg2k.c:602:10: fatal error: openjpeg.h: No such file or directory
602 | #include "openjpeg.h"
| ^~~~~~~~~~~~
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
----------------------------------------
Failed building wheel for imagecodecs
Running setup.py clean for imagecodecs
Failed to build imagecodecs
Installing collected packages: imagecodecs, tifffile
Running setup.py install for imagecodecs ... error
Complete output from command /usr/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-zdg75dz2/imagecodecs/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-record-cehjqjzh/install-record.txt --single-version-externally-managed --compile --user --prefix=:
running install
running build
running build_py
creating build
creating build/lib.linux-x86_64-3.7
creating build/lib.linux-x86_64-3.7/imagecodecs
copying imagecodecs/__init__.py -> build/lib.linux-x86_64-3.7/imagecodecs
copying imagecodecs/imagecodecs.py -> build/lib.linux-x86_64-3.7/imagecodecs
copying imagecodecs/_imagecodecs.py -> build/lib.linux-x86_64-3.7/imagecodecs
copying imagecodecs/__main__.py -> build/lib.linux-x86_64-3.7/imagecodecs
creating build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-lz4 -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-charls -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libpng -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libaec -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-giflib -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-liblzma -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-bitshuffle -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libmng -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-blosc -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-zopfli -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-brunsli -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-zlib -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libwebp -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-lcms2 -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-bzip2 -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-fastlz -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-zstd -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-openjpeg -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-jpg_0xc3 -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-lzf -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-jpeg -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-jxrlib -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libjpeg-turbo -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-libtiff -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-brotli -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-zfp -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
copying imagecodecs/licenses/LICENSE-snappy -> build/lib.linux-x86_64-3.7/imagecodecs/licenses
running build_ext
building 'imagecodecs._aec' extension
creating build/temp.linux-x86_64-3.7
creating build/temp.linux-x86_64-3.7/imagecodecs
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_aec.c -o build/temp.linux-x86_64-3.7/imagecodecs/_aec.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_aec.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_aec.o -L/usr/local/lib -lm -laec -o build/lib.linux-x86_64-3.7/imagecodecs/_aec.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._bitshuffle' extension
creating build/temp.linux-x86_64-3.7/bitshuffle-0.3.5
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -Ibitshuffle-0.3.5 -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_bitshuffle.c -o build/temp.linux-x86_64-3.7/imagecodecs/_bitshuffle.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_bitshuffle.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -Ibitshuffle-0.3.5 -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c bitshuffle-0.3.5/bitshuffle_core.c -o build/temp.linux-x86_64-3.7/bitshuffle-0.3.5/bitshuffle_core.o
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -Ibitshuffle-0.3.5 -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c bitshuffle-0.3.5/iochain.c -o build/temp.linux-x86_64-3.7/bitshuffle-0.3.5/iochain.o
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_bitshuffle.o build/temp.linux-x86_64-3.7/bitshuffle-0.3.5/bitshuffle_core.o build/temp.linux-x86_64-3.7/bitshuffle-0.3.5/iochain.o -L/usr/local/lib -lm -o build/lib.linux-x86_64-3.7/imagecodecs/_bitshuffle.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._blosc' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_blosc.c -o build/temp.linux-x86_64-3.7/imagecodecs/_blosc.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_blosc.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_blosc.o -L/usr/local/lib -lm -lblosc -o build/lib.linux-x86_64-3.7/imagecodecs/_blosc.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._brotli' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_brotli.c -o build/temp.linux-x86_64-3.7/imagecodecs/_brotli.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_brotli.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_brotli.o -L/usr/local/lib -lm -lbrotlienc -lbrotlidec -lbrotlicommon -o build/lib.linux-x86_64-3.7/imagecodecs/_brotli.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._bz2' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_bz2.c -o build/temp.linux-x86_64-3.7/imagecodecs/_bz2.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_bz2.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_bz2.o -L/usr/local/lib -lm -lbz2 -o build/lib.linux-x86_64-3.7/imagecodecs/_bz2.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._gif' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_gif.c -o build/temp.linux-x86_64-3.7/imagecodecs/_gif.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_gif.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_gif.o -L/usr/local/lib -lm -lgif -o build/lib.linux-x86_64-3.7/imagecodecs/_gif.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._imcd' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_imcd.c -o build/temp.linux-x86_64-3.7/imagecodecs/_imcd.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_imcd.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/imcd.c -o build/temp.linux-x86_64-3.7/imagecodecs/imcd.o
x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.7/imagecodecs/_imcd.o build/temp.linux-x86_64-3.7/imagecodecs/imcd.o -L/usr/local/lib -lm -o build/lib.linux-x86_64-3.7/imagecodecs/_imcd.cpython-37m-x86_64-linux-gnu.so
building 'imagecodecs._jpeg2k' extension
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DOPJ_HAVE_LIBLCMS2=1 -Iimagecodecs -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -c imagecodecs/_jpeg2k.c -o build/temp.linux-x86_64-3.7/imagecodecs/_jpeg2k.o
In file included from /usr/include/python3.7m/numpy/ndarraytypes.h:1830,
from /usr/include/python3.7m/numpy/ndarrayobject.h:12,
from /usr/include/python3.7m/numpy/arrayobject.h:4,
from imagecodecs/_jpeg2k.c:598:
/usr/include/python3.7m/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
imagecodecs/_jpeg2k.c:602:10: fatal error: openjpeg.h: No such file or directory
602 | #include "openjpeg.h"
| ^~~~~~~~~~~~
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
----------------------------------------
Command "/usr/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-zdg75dz2/imagecodecs/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-record-cehjqjzh/install-record.txt --single-version-externally-managed --compile --user --prefix=" failed with error code 1 in /tmp/pip-install-zdg75dz2/imagecodecs/
I installed tifffile via conda, no change.
Now if I try to install tifffile via pip2 is says:
Requirement already satisfied: tifffile in /usr/lib/python3/dist-packages (2018.11.28)
But python2 still doesn't find the module.
from make_arq.
abrock
commented on August 27, 2024
I tried it and it works as expected. The 16x pixelshift shows some minor artifacts but I don't know if they are caused by RawTherapee, I'll need to capture more photos for testing.
from make_arq.
agriggio
commented on August 27, 2024
the 16x will show artifacts if there is a little motion, and they will be very hard to correct. That's because a 16x PS is essentially a 4x PS in which each of the frame is pre-combined. That's how the format works. It means that RT won't be able to detect and correct motion properly there, you need a pixel editor to fix them
from make_arq.
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