wrangling binder dependencies, doesnt like R 4.1

kutaslab · Jul 8, 2021 · 5e917e6 · 5e917e6
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diff --git a/binder/README.txt b/binder/README.txt
@@ -19,9 +19,9 @@ Python 3.7 conda environment, activate the environment and dump it like so
   activate fg_binder
   conda env export -f environment.yml 
 
-Alternatively, in a Python 3.8 environment with mambma and conda-forge priority 
+Alternatively, in a Python 3.7 environment with mambma and conda-forge priority 
 
-  conda create -n fg_binder python=3.8 fitgrid -c kutaslab/label/pre-release -c ejolly -c conda-forge -y
+  conda create -n fg_binder python=3.7 "r-base<4.0" fitgrid -c kutaslab/label/pre-release -c ejolly -c conda-forge -y
   activate fg_binder
   conda env export -f environment.yml
 

diff --git a/binder/environment.yml b/binder/environment.yml
@@ -10,7 +10,7 @@ dependencies:
   - _r-mutex=1.0.1=anacondar_1
   - abseil-cpp=20210324.2=h9c3ff4c_0
   - alsa-lib=1.2.3=h516909a_0
-  - arrow-cpp=4.0.1=py38h4710c81_4_cpu
+  - arrow-cpp=4.0.1=py37h3d702e5_4_cpu
   - aws-c-cal=0.5.11=h95a6274_0
   - aws-c-common=0.6.2=h7f98852_0
   - aws-c-event-stream=0.2.7=h3541f99_13
@@ -20,22 +20,22 @@ dependencies:
   - binutils_impl_linux-64=2.36.1=h193b22a_1
   - binutils_linux-64=2.36=hf3e587d_31
   - blosc=1.21.0=h9c3ff4c_0
-  - brotlipy=0.7.0=py38h497a2fe_1001
+  - brotlipy=0.7.0=py37hb5d75c8_1001
   - bwidget=1.9.14=0
   - bzip2=1.0.8=h7f98852_4
   - c-ares=1.17.1=h7f98852_1
   - ca-certificates=2021.5.30=ha878542_0
   - cairo=1.16.0=h6cf1ce9_1008
-  - certifi=2021.5.30=py38h578d9bd_0
-  - cffi=1.14.5=py38ha65f79e_0
-  - chardet=4.0.0=py38h578d9bd_1
-  - cryptography=3.4.7=py38ha5dfef3_0
+  - certifi=2021.5.30=py37h89c1867_0
+  - cffi=1.14.5=py37hc58025e_0
+  - chardet=4.0.0=py37h89c1867_1
+  - cryptography=3.4.7=py37h5d9358c_0
   - curl=7.77.0=hea6ffbf_0
   - cycler=0.10.0=py_2
   - dbus=1.13.6=h48d8840_2
   - deepdish=0.3.6=pyh9f0ad1d_0
   - expat=2.4.1=h9c3ff4c_0
-  - fitgrid=0.5.1=py38_gd7b239ca_0
+  - fitgrid=0.5.1=py37_gd7b239ca_0
   - font-ttf-dejavu-sans-mono=2.37=hab24e00_0
   - font-ttf-inconsolata=3.000=h77eed37_0
   - font-ttf-source-code-pro=2.038=h77eed37_0
@@ -70,7 +70,7 @@ dependencies:
   - joblib=1.0.1=pyhd8ed1ab_0
   - jpeg=9d=h516909a_0
   - kernel-headers_linux-64=2.6.32=h77966d4_13
-  - kiwisolver=1.3.1=py38h1fd1430_1
+  - kiwisolver=1.3.1=py37h2527ec5_1
   - krb5=1.19.1=hcc1bbae_0
   - lcms2=2.12=hddcbb42_0
   - ld_impl_linux-64=2.36.1=hea4e1c9_1
@@ -118,130 +118,129 @@ dependencies:
   - lz4-c=1.9.3=h9c3ff4c_0
   - lzo=2.10=h516909a_1000
   - make=4.3=hd18ef5c_1
-  - markupsafe=2.0.1=py38h497a2fe_0
-  - matplotlib=3.4.2=py38h578d9bd_0
-  - matplotlib-base=3.4.2=py38hcc49a3a_0
-  - mock=4.0.3=py38h578d9bd_1
+  - markupsafe=2.0.1=py37h5e8e339_0
+  - matplotlib=3.4.2=py37h89c1867_0
+  - matplotlib-base=3.4.2=py37hdd32ed1_0
+  - mock=4.0.3=py37h89c1867_1
   - mysql-common=8.0.25=ha770c72_2
   - mysql-libs=8.0.25=hfa10184_2
   - ncurses=6.2=h58526e2_4
   - nspr=4.30=h9c3ff4c_0
   - nss=3.67=hb5efdd6_0
-  - numexpr=2.7.3=py38h51da96c_0
-  - numpy=1.21.0=py38h9894fe3_0
+  - numexpr=2.7.3=py37hdc94413_0
+  - numpy=1.21.0=py37h038b26d_0
   - olefile=0.46=pyh9f0ad1d_1
   - openjpeg=2.4.0=hb52868f_1
   - openssl=1.1.1k=h7f98852_0
   - orc=1.6.9=h58a87f1_0
-  - pandas=1.1.5=py38h51da96c_0
+  - pandas=1.1.5=py37hdc94413_0
   - pango=1.48.7=hb8ff022_0
   - parquet-cpp=1.5.1=1
   - patsy=0.5.1=py_0
   - pcre=8.45=h9c3ff4c_0
-  - pcre2=10.37=h032f7d1_0
-  - pillow=8.3.1=py38h8e6f84c_0
+  - pillow=8.3.1=py37h0f21c89_0
   - pip=21.1.3=pyhd8ed1ab_0
   - pixman=0.40.0=h36c2ea0_0
   - pthread-stubs=0.4=h36c2ea0_1001
-  - pyarrow=4.0.1=py38hc9229eb_4_cpu
+  - pyarrow=4.0.1=py37he2832ee_4_cpu
   - pycparser=2.20=pyh9f0ad1d_2
-  - pymer4=0.7.4=py38r1e91f48_0
+  - pymer4=0.7.4=py37r1e91f48_0
   - pyopenssl=20.0.1=pyhd8ed1ab_0
   - pyparsing=2.4.7=pyh9f0ad1d_0
-  - pyqt=5.12.3=py38h578d9bd_7
-  - pyqt-impl=5.12.3=py38h7400c14_7
-  - pyqt5-sip=4.19.18=py38h709712a_7
-  - pyqtchart=5.12=py38h7400c14_7
-  - pyqtwebengine=5.12.1=py38h7400c14_7
-  - pysocks=1.7.1=py38h578d9bd_3
-  - pytables=3.6.1=py38hf9f05d5_3
-  - python=3.8.10=h49503c6_1_cpython
+  - pyqt=5.12.3=py37h89c1867_7
+  - pyqt-impl=5.12.3=py37he336c9b_7
+  - pyqt5-sip=4.19.18=py37hcd2ae1e_7
+  - pyqtchart=5.12=py37he336c9b_7
+  - pyqtwebengine=5.12.1=py37he336c9b_7
+  - pysocks=1.7.1=py37h89c1867_3
+  - pytables=3.6.1=py37he17a9a8_3
+  - python=3.7.10=hffdb5ce_100_cpython
   - python-dateutil=2.8.1=py_0
-  - python_abi=3.8=2_cp38
+  - python_abi=3.7=2_cp37m
   - pytz=2021.1=pyhd8ed1ab_0
   - qt=5.12.9=hda022c4_4
-  - r-assertthat=0.2.1=r41hc72bb7e_2
-  - r-backports=1.2.1=r41hcfec24a_0
-  - r-base=4.1.0=hb67fd72_2
-  - r-boot=1.3_28=r41hc72bb7e_0
-  - r-brio=1.1.2=r41hcfec24a_0
-  - r-callr=3.7.0=r41hc72bb7e_0
-  - r-cli=3.0.0=r41hc72bb7e_0
-  - r-colorspace=2.0_2=r41hcfec24a_0
-  - r-crayon=1.4.1=r41hc72bb7e_0
-  - r-desc=1.3.0=r41hc72bb7e_0
-  - r-diffobj=0.3.4=r41hcfec24a_0
-  - r-digest=0.6.27=r41h03ef668_0
-  - r-ellipsis=0.3.2=r41hcfec24a_0
-  - r-emmeans=1.6.1=r41hc72bb7e_0
-  - r-estimability=1.3=r41hc72bb7e_1003
-  - r-evaluate=0.14=r41hc72bb7e_2
-  - r-fansi=0.4.2=r41hcfec24a_0
-  - r-farver=2.1.0=r41h03ef668_0
-  - r-ggplot2=3.3.5=r41hc72bb7e_0
-  - r-glue=1.4.2=r41hcfec24a_0
-  - r-gtable=0.3.0=r41hc72bb7e_3
-  - r-isoband=0.2.4=r41h03ef668_0
-  - r-jsonlite=1.7.2=r41hcfec24a_0
-  - r-labeling=0.4.2=r41hc72bb7e_0
-  - r-lattice=0.20_44=r41hcfec24a_0
-  - r-lifecycle=1.0.0=r41hc72bb7e_0
-  - r-lme4=1.1_27.1=r41h03ef668_0
-  - r-lmertest=3.1_3=r41hc72bb7e_0
-  - r-magrittr=2.0.1=r41hcfec24a_1
-  - r-mass=7.3_54=r41hcfec24a_0
-  - r-matrix=1.3_4=r41he454529_0
-  - r-mgcv=1.8_36=r41he454529_0
-  - r-minqa=1.2.4=r41h5ee154c_1006
-  - r-munsell=0.5.0=r41hc72bb7e_1003
-  - r-mvtnorm=1.1_2=r41h859d828_0
-  - r-nlme=3.1_152=r41h859d828_0
-  - r-nloptr=1.2.2.2=r41h03ef668_0
-  - r-numderiv=2016.8_1.1=r41hc72bb7e_3
-  - r-pillar=1.6.1=r41hc72bb7e_0
-  - r-pkgconfig=2.0.3=r41hc72bb7e_1
-  - r-pkgload=1.2.1=r41h03ef668_0
-  - r-plyr=1.8.6=r41h03ef668_1
-  - r-praise=1.0.0=r41hc72bb7e_1004
-  - r-processx=3.5.2=r41hcfec24a_0
-  - r-ps=1.6.0=r41hcfec24a_0
-  - r-r6=2.5.0=r41hc72bb7e_0
-  - r-rcolorbrewer=1.1_2=r41h785f33e_1003
-  - r-rcpp=1.0.7=r41h03ef668_0
-  - r-rcppeigen=0.3.3.9.1=r41h306847c_0
-  - r-rematch2=2.1.2=r41hc72bb7e_1
-  - r-rlang=0.4.11=r41hcfec24a_0
-  - r-rprojroot=2.0.2=r41hc72bb7e_0
-  - r-rstudioapi=0.13=r41hc72bb7e_0
-  - r-scales=1.1.1=r41hc72bb7e_0
-  - r-statmod=1.4.36=r41h92ddd45_0
-  - r-testthat=3.0.4=r41h03ef668_0
-  - r-tibble=3.1.2=r41hcfec24a_0
-  - r-utf8=1.2.1=r41hcfec24a_0
-  - r-vctrs=0.3.8=r41hcfec24a_1
-  - r-viridislite=0.4.0=r41hc72bb7e_0
-  - r-waldo=0.2.5=r41hc72bb7e_0
-  - r-withr=2.4.2=r41hc72bb7e_0
-  - r-xtable=1.8_4=r41hc72bb7e_3
+  - r-assertthat=0.2.1=r36h6115d3f_2
+  - r-backports=1.2.1=r36hcfec24a_0
+  - r-base=3.6.3=hbcea092_8
+  - r-boot=1.3_28=r36hc72bb7e_0
+  - r-brio=1.1.2=r36hcfec24a_0
+  - r-callr=3.7.0=r36hc72bb7e_0
+  - r-cli=2.5.0=r36hc72bb7e_0
+  - r-colorspace=2.0_1=r36hcfec24a_0
+  - r-crayon=1.4.1=r36hc72bb7e_0
+  - r-desc=1.3.0=r36hc72bb7e_0
+  - r-diffobj=0.3.4=r36hcfec24a_0
+  - r-digest=0.6.27=r36h03ef668_0
+  - r-ellipsis=0.3.2=r36hcfec24a_0
+  - r-emmeans=1.6.0=r36hc72bb7e_0
+  - r-estimability=1.3=r36h6115d3f_1003
+  - r-evaluate=0.14=r36h6115d3f_2
+  - r-fansi=0.4.2=r36hcfec24a_0
+  - r-farver=2.1.0=r36h03ef668_0
+  - r-ggplot2=3.3.3=r36hc72bb7e_0
+  - r-glue=1.4.2=r36hcfec24a_0
+  - r-gtable=0.3.0=r36h6115d3f_3
+  - r-isoband=0.2.4=r36h03ef668_0
+  - r-jsonlite=1.7.2=r36hcfec24a_0
+  - r-labeling=0.4.2=r36h142f84f_0
+  - r-lattice=0.20_44=r36hcfec24a_0
+  - r-lifecycle=1.0.0=r36hc72bb7e_0
+  - r-lme4=1.1_27=r36h03ef668_0
+  - r-lmertest=3.1_3=r36h142f84f_0
+  - r-magrittr=2.0.1=r36hcfec24a_1
+  - r-mass=7.3_54=r36hcfec24a_0
+  - r-matrix=1.3_3=r36he454529_0
+  - r-mgcv=1.8_35=r36he454529_0
+  - r-minqa=1.2.4=r36h228a9c8_1006
+  - r-munsell=0.5.0=r36h6115d3f_1003
+  - r-mvtnorm=1.1_1=r36h580db52_1
+  - r-nlme=3.1_152=r36h859d828_0
+  - r-nloptr=1.2.2.2=r36h0357c0b_0
+  - r-numderiv=2016.8_1.1=r36h6115d3f_3
+  - r-pillar=1.6.1=r36hc72bb7e_0
+  - r-pkgconfig=2.0.3=r36h6115d3f_1
+  - r-pkgload=1.2.1=r36h03ef668_0
+  - r-plyr=1.8.6=r36h0357c0b_1
+  - r-praise=1.0.0=r36h6115d3f_1004
+  - r-processx=3.5.2=r36hcfec24a_0
+  - r-ps=1.6.0=r36hcfec24a_0
+  - r-r6=2.5.0=r36hc72bb7e_0
+  - r-rcolorbrewer=1.1_2=r36h6115d3f_1003
+  - r-rcpp=1.0.6=r36h03ef668_0
+  - r-rcppeigen=0.3.3.9.1=r36h306847c_0
+  - r-rematch2=2.1.2=r36h6115d3f_1
+  - r-rlang=0.4.11=r36hcfec24a_0
+  - r-rprojroot=2.0.2=r36hc72bb7e_0
+  - r-rstudioapi=0.13=r36hc72bb7e_0
+  - r-scales=1.1.1=r36h6115d3f_0
+  - r-statmod=1.4.36=r36h92ddd45_0
+  - r-testthat=3.0.2=r36h03ef668_0
+  - r-tibble=3.1.2=r36hcfec24a_0
+  - r-utf8=1.2.1=r36hcfec24a_0
+  - r-vctrs=0.3.8=r36hcfec24a_1
+  - r-viridislite=0.4.0=r36hc72bb7e_0
+  - r-waldo=0.2.5=r36hc72bb7e_0
+  - r-withr=2.4.2=r36hc72bb7e_0
+  - r-xtable=1.8_4=r36h6115d3f_3
   - re2=2021.06.01=h9c3ff4c_0
   - readline=8.1=h46c0cb4_0
   - requests=2.25.1=pyhd3deb0d_0
-  - rpy2=3.4.5=py38r41hb5d20a5_0
+  - rpy2=3.4.5=py37r36h6f94858_0
   - s2n=1.0.10=h9b69904_0
-  - scipy=1.7.0=py38h7b17777_0
+  - scipy=1.7.0=py37h29e03ee_0
   - seaborn=0.11.1=ha770c72_0
   - seaborn-base=0.11.1=pyhd8ed1ab_1
   - sed=4.8=he412f7d_0
-  - setuptools=49.6.0=py38h578d9bd_3
+  - setuptools=49.6.0=py37h89c1867_3
   - simplegeneric=0.8.1=py_1
   - six=1.16.0=pyh6c4a22f_0
   - snappy=1.1.8=he1b5a44_3
   - sqlite=3.36.0=h9cd32fc_0
-  - statsmodels=0.12.2=py38h5c078b8_0
+  - statsmodels=0.12.2=py37h902c9e0_0
   - sysroot_linux-64=2.12=h77966d4_13
   - tk=8.6.10=hed695b0_1
   - tktable=2.10=hb7b940f_3
-  - tornado=6.1=py38h497a2fe_1
+  - tornado=6.1=py37h5e8e339_1
   - tqdm=4.61.2=pyhd8ed1ab_1
   - tzlocal=2.1=pyh9f0ad1d_0
   - urllib3=1.26.6=pyhd8ed1ab_0
@@ -254,7 +253,6 @@ dependencies:
   - xorg-libxdmcp=1.1.3=h516909a_0
   - xorg-libxext=1.3.4=h7f98852_1
   - xorg-libxrender=0.9.10=h7f98852_1003
-  - xorg-libxt=1.2.1=h7f98852_2
   - xorg-renderproto=0.11.1=h14c3975_1002
   - xorg-xextproto=7.3.0=h14c3975_1002
   - xorg-xproto=7.0.31=h14c3975_1007