Hi Taylor,
Thank you for your help. I tried the installation again and it still failed. Here is the content of the log file:
Installing FSL conda distribution into /usr/local/fsl/fslpython
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
4 49.3M 4 2446k 0 0 7767k 0 0:00:06 --:--:-- 0:00:06 7767k
88 49.3M 88 43.5M 0 0 32.9M 0 0:00:01 0:00:01 --:--:-- 32.9M
100 49.3M 100 49.3M 0 0 34.5M 0 0:00:01 0:00:01 --:--:-- 34.5M
PREFIX=/usr/local/fsl/fslpython
Unpacking payload ...
0%| | 0/35 [00:00<?, ?it/s]
Extracting : python.app-2-py37_9.conda: 0%| | 0/35 [00:00<?, ?it/s]
Extracting : python.app-2-py37_9.conda: 3%|▎ | 1/35 [00:00<00:16, 2.06it/s]
Extracting : six-1.12.0-py37_0.conda: 3%|▎ | 1/35 [00:00<00:16, 2.06it/s]
Extracting : libffi-3.2.1-h475c297_4.conda: 6%|▌ | 2/35 [00:00<00:16, 2.06it/s]
Extracting : libcxxabi-4.0.1-hcfea43d_1.conda: 9%|▊ | 3/35 [00:00<00:15, 2.06it/s]
Extracting : conda-package-handling-1.6.0-py37h1de35cc_0.conda: 11%|█▏ | 4/35 [00:00<00:15, 2.06it/s]
Extracting : pycosat-0.6.3-py37h1de35cc_0.conda: 14%|█▍ | 5/35 [00:00<00:14, 2.06it/s]
Extracting : ncurses-6.1-h0a44026_1.conda: 17%|█▋ | 6/35 [00:01<00:14, 2.06it/s]
Extracting : ncurses-6.1-h0a44026_1.conda: 20%|██ | 7/35 [00:01<00:11, 2.51it/s]
Extracting : readline-7.0-h1de35cc_5.conda: 20%|██ | 7/35 [00:01<00:11, 2.51it/s]
Extracting : urllib3-1.24.2-py37_0.conda: 23%|██▎ | 8/35 [00:01<00:10, 2.51it/s]
Extracting : idna-2.8-py37_0.conda: 26%|██▌ | 9/35 [00:01<00:10, 2.51it/s]
Extracting : chardet-3.0.4-py37_1003.conda: 29%|██▊ | 10/35 [00:01<00:09, 2.51it/s]
Extracting : zlib-1.2.11-h1de35cc_3.conda: 31%|███▏ | 11/35 [00:01<00:09, 2.51it/s]
Extracting : requests-2.22.0-py37_0.conda: 34%|███▍ | 12/35 [00:01<00:09, 2.51it/s]
Extracting : ruamel_yaml-0.15.46-py37h1de35cc_0.conda: 37%|███▋ | 13/35 [00:01<00:08, 2.51it/s]
Extracting : xz-5.2.4-h1de35cc_4.conda: 40%|████ | 14/35 [00:01<00:08, 2.51it/s]
Extracting : libedit-3.1.20181209-hb402a30_0.conda: 43%|████▎ | 15/35 [00:01<00:07, 2.51it/s]
Extracting : pycparser-2.19-py37_0.conda: 46%|████▌ | 16/35 [00:01<00:07, 2.51it/s]
Extracting : libcxx-4.0.1-hcfea43d_1.conda: 49%|████▊ | 17/35 [00:01<00:07, 2.51it/s]
Extracting : yaml-0.1.7-hc338f04_2.conda: 51%|█████▏ | 18/35 [00:01<00:06, 2.51it/s]
Extracting : python-3.7.4-h359304d_1.conda: 54%|█████▍ | 19/35 [00:01<00:06, 2.51it/s]
Extracting : python-3.7.4-h359304d_1.conda: 57%|█████▋ | 20/35 [00:01<00:04, 3.52it/s]
Extracting : pyopenssl-19.0.0-py37_0.conda: 57%|█████▋ | 20/35 [00:01<00:04, 3.52it/s]
Extracting : tk-8.6.8-ha441bb4_0.conda: 60%|██████ | 21/35 [00:01<00:03, 3.52it/s]
Extracting : tqdm-4.36.1-py_0.conda: 63%|██████▎ | 22/35 [00:01<00:03, 3.52it/s]
Extracting : sqlite-3.30.0-ha441bb4_0.tar.bz2: 66%|██████▌ | 23/35 [00:01<00:03, 3.52it/s]
Extracting : openssl-1.1.1d-h1de35cc_3.tar.bz2: 69%|██████▊ | 24/35 [00:01<00:03, 3.52it/s]
Extracting : pip-19.3.1-py37_0.tar.bz2: 71%|███████▏ | 25/35 [00:01<00:02, 3.52it/s]
Extracting : cryptography-2.8-py37ha12b0ac_0.tar.bz2: 74%|███████▍ | 26/35 [00:01<00:02, 3.52it/s]
Extracting : conda-4.7.12-py37_0.tar.bz2: 77%|███████▋ | 27/35 [00:01<00:02, 3.52it/s]
Extracting : setuptools-41.4.0-py37_0.tar.bz2: 80%|████████ | 28/35 [00:01<00:01, 3.52it/s]
Extracting : asn1crypto-1.2.0-py37_0.tar.bz2: 83%|████████▎ | 29/35 [00:01<00:01, 3.52it/s]
Extracting : wheel-0.33.6-py37_0.tar.bz2: 86%|████████▌ | 30/35 [00:01<00:01, 3.52it/s]
Extracting : ca-certificates-2019.10.16-0.tar.bz2: 89%|████████▊ | 31/35 [00:01<00:01, 3.52it/s]
Extracting : cffi-1.13.0-py37hb5b8e2f_0.tar.bz2: 91%|█████████▏| 32/35 [00:01<00:00, 3.52it/s]
Extracting : pysocks-1.7.1-py37_0.tar.bz2: 94%|█████████▍| 33/35 [00:01<00:00, 3.52it/s]
Extracting : certifi-2019.9.11-py37_0.tar.bz2: 97%|█████████▋| 34/35 [00:01<00:00, 3.52it/s]
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /usr/local/fsl/fslpython
added / updated specs:
- asn1crypto==1.2.0=py37_0
- ca-certificates==2019.10.16=0
- certifi==2019.9.11=py37_0
- cffi==1.13.0=py37hb5b8e2f_0
- chardet==3.0.4=py37_1003
- conda-package-handling==1.6.0=py37h1de35cc_0
- conda==4.7.12=py37_0
- cryptography==2.8=py37ha12b0ac_0
- idna==2.8=py37_0
- libcxx==4.0.1=hcfea43d_1
- libcxxabi==4.0.1=hcfea43d_1
- libedit==3.1.20181209=hb402a30_0
- libffi==3.2.1=h475c297_4
- ncurses==6.1=h0a44026_1
- openssl==1.1.1d=h1de35cc_3
- pip==19.3.1=py37_0
- pycosat==0.6.3=py37h1de35cc_0
- pycparser==2.19=py37_0
- pyopenssl==19.0.0=py37_0
- pysocks==1.7.1=py37_0
- python.app==2=py37_9
- python==3.7.4=h359304d_1
- readline==7.0=h1de35cc_5
- requests==2.22.0=py37_0
- ruamel_yaml==0.15.46=py37h1de35cc_0
- setuptools==41.4.0=py37_0
- six==1.12.0=py37_0
- sqlite==3.30.0=ha441bb4_0
- tk==8.6.8=ha441bb4_0
- tqdm==4.36.1=py_0
- urllib3==1.24.2=py37_0
- wheel==0.33.6=py37_0
- xz==5.2.4=h1de35cc_4
- yaml==0.1.7=hc338f04_2
- zlib==1.2.11=h1de35cc_3
The following NEW packages will be INSTALLED:
asn1crypto pkgs/main/osx-64::asn1crypto-1.2.0-py37_0
ca-certificates pkgs/main/osx-64::ca-certificates-2019.10.16-0
certifi pkgs/main/osx-64::certifi-2019.9.11-py37_0
cffi pkgs/main/osx-64::cffi-1.13.0-py37hb5b8e2f_0
chardet pkgs/main/osx-64::chardet-3.0.4-py37_1003
conda pkgs/main/osx-64::conda-4.7.12-py37_0
conda-package-han~ pkgs/main/osx-64::conda-package-handling-1.6.0-py37h1de35cc_0
cryptography pkgs/main/osx-64::cryptography-2.8-py37ha12b0ac_0
idna pkgs/main/osx-64::idna-2.8-py37_0
libcxx pkgs/main/osx-64::libcxx-4.0.1-hcfea43d_1
libcxxabi pkgs/main/osx-64::libcxxabi-4.0.1-hcfea43d_1
libedit pkgs/main/osx-64::libedit-3.1.20181209-hb402a30_0
libffi pkgs/main/osx-64::libffi-3.2.1-h475c297_4
ncurses pkgs/main/osx-64::ncurses-6.1-h0a44026_1
openssl pkgs/main/osx-64::openssl-1.1.1d-h1de35cc_3
pip pkgs/main/osx-64::pip-19.3.1-py37_0
pycosat pkgs/main/osx-64::pycosat-0.6.3-py37h1de35cc_0
pycparser pkgs/main/osx-64::pycparser-2.19-py37_0
pyopenssl pkgs/main/osx-64::pyopenssl-19.0.0-py37_0
pysocks pkgs/main/osx-64::pysocks-1.7.1-py37_0
python pkgs/main/osx-64::python-3.7.4-h359304d_1
python.app pkgs/main/osx-64::python.app-2-py37_9
readline pkgs/main/osx-64::readline-7.0-h1de35cc_5
requests pkgs/main/osx-64::requests-2.22.0-py37_0
ruamel_yaml pkgs/main/osx-64::ruamel_yaml-0.15.46-py37h1de35cc_0
setuptools pkgs/main/osx-64::setuptools-41.4.0-py37_0
six pkgs/main/osx-64::six-1.12.0-py37_0
sqlite pkgs/main/osx-64::sqlite-3.30.0-ha441bb4_0
tk pkgs/main/osx-64::tk-8.6.8-ha441bb4_0
tqdm pkgs/main/noarch::tqdm-4.36.1-py_0
urllib3 pkgs/main/osx-64::urllib3-1.24.2-py37_0
wheel pkgs/main/osx-64::wheel-0.33.6-py37_0
xz pkgs/main/osx-64::xz-5.2.4-h1de35cc_4
yaml pkgs/main/osx-64::yaml-0.1.7-hc338f04_2
zlib pkgs/main/osx-64::zlib-1.2.11-h1de35cc_3
Preparing transaction: ...working... done
Executing transaction: ...working... done
installation finished.
Warning: you have pip-installed dependencies in your environment file, but you do not list pip itself as one of your conda dependencies. Conda may not use the correct pip to install your packages, and they may end up in the wrong place. Please add an explicit pip dependency. I'm adding one for you, but still nagging you.
Collecting package metadata (repodata.json): ...working... failed
CondaHTTPError: HTTP 000 CONNECTION FAILED for url <https://fsl.fmrib.ox.ac.uk/fsldownloads/fslconda/channel/osx-64/repodata.json>
Elapsed: -
An HTTP error occurred when trying to retrieve this URL.
HTTP errors are often intermittent, and a simple retry will get you on your way.
SSLError(MaxRetryError('HTTPSConnectionPool(host=\'fsl.fmrib.ox.ac.uk\', port=443): Max retries exceeded with url: /fsldownloads/fslconda/channel/osx-64/repodata.json (Caused by SSLError(SSLError("bad handshake: Error([(\'SSL routines\', \'tls_process_server_certificate\', \'certificate verify failed\')])")))'))
Thanks for your help.
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