From 353a5e97a3e084618d16e92a0530fb9b53cd7958 Mon Sep 17 00:00:00 2001
From: Kevin Le <kevin.kent.le@gmail.com>
Date: Mon, 20 Nov 2017 15:46:29 -0500
Subject: [PATCH 1/7] ADD: excel spread sheet reading for pandas

---
 app/environment.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/app/environment.yml b/app/environment.yml
index b0ee983f..f551b601 100644
--- a/app/environment.yml
+++ b/app/environment.yml
@@ -225,5 +225,6 @@ dependencies:
   - uwsgi==2.0.14
   - visitor==0.1.3
   - wtforms==2.1
+  - xlrd==1.1.0
 prefix: /home/matt/anaconda3/envs/backend
 

From 53a214f23cb7ea038bd95f7d89756a847a3074e1 Mon Sep 17 00:00:00 2001
From: Kevin Le <kevin.kent.le@gmail.com>
Date: Sun, 4 Feb 2018 00:12:14 -0500
Subject: [PATCH 2/7] Update environment.yml

---
 app/environment.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/app/environment.yml b/app/environment.yml
index f551b601..5c5e7504 100644
--- a/app/environment.yml
+++ b/app/environment.yml
@@ -55,7 +55,7 @@ dependencies:
 - bioconductor-s4vectors=0.12.2=r3.3.2_0
 - bioconductor-xvector=0.14.1=r3.3.2_0
 - bioconductor-zlibbioc=1.20.0=r3.3.2_1
-- biopython=1.68=py27_0
+- biopython=1.69=py27_0
 - blast=2.6.0=boost1.60_0
 - fasttree=2.1.9=2
 - mafft=7.310=0

From d493a2aab5e6465bc6f43dbe8f6245d368aefc63 Mon Sep 17 00:00:00 2001
From: Kevin Le <kevin.kent.le@gmail.com>
Date: Sun, 4 Feb 2018 00:25:13 -0500
Subject: [PATCH 3/7] Update environment.yml

---
 app/environment.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/app/environment.yml b/app/environment.yml
index 5c5e7504..424e7e68 100644
--- a/app/environment.yml
+++ b/app/environment.yml
@@ -55,7 +55,7 @@ dependencies:
 - bioconductor-s4vectors=0.12.2=r3.3.2_0
 - bioconductor-xvector=0.14.1=r3.3.2_0
 - bioconductor-zlibbioc=1.20.0=r3.3.2_1
-- biopython=1.69=py27_0
+- biopython=1.70=py27_0
 - blast=2.6.0=boost1.60_0
 - fasttree=2.1.9=2
 - mafft=7.310=0

From 4c42e3778c0fa54ccae96d1ebbe75406ba97a7b7 Mon Sep 17 00:00:00 2001
From: Kevin Le <kevin.kent.le@gmail.com>
Date: Sun, 11 Feb 2018 19:47:46 -0500
Subject: [PATCH 4/7] Update environment.yml

---
 app/environment.yml | 463 +++++++++++++++++++++++---------------------
 1 file changed, 238 insertions(+), 225 deletions(-)

diff --git a/app/environment.yml b/app/environment.yml
index 424e7e68..331c1ec6 100644
--- a/app/environment.yml
+++ b/app/environment.yml
@@ -1,230 +1,243 @@
 name: backend
 channels:
-- jamez-eh
-- javascript
-- mdwhitesi
-- anaconda
-- defaults
-- bioconda
-- compbiocore
-- r
-- conda-forge
+  - mdwhitesi
+  - kevinkle
+  - javascript
+  - jamez-eh
+  - compbiocore
+  - anaconda
+  - bioconda
+  - conda-forge
+  - defaults
 dependencies:
-- boost=1.60.0=py27_0
-- click=6.6=py27_0
-- flask=0.12=py27_0
-- freetype=2.5.5=2
-- html5lib=0.999=py27_0
-- icu=54.1=0
-- itsdangerous=0.24=py27_0
-- jbig=2.1=0
-- jinja2=2.9.4=py27_0
-- jpeg=9b=0
-- libgcc=5.2.0=0
-- libpng=1.6.27=0
-- libpq=9.5.4=0
-- libtiff=4.0.6=3
-- markupsafe=0.23=py27_2
-- mkl=2017.0.1=0
-- msgpack-python=0.4.8=py27_0
-- numpy=1.11.3=py27_0
-- openssl=1.0.2j=0
-- pandas=0.19.2=np111py27_1
-- pillow=4.0.0=py27_0
-- pip=9.0.1=py27_1
-- psycopg2=2.6.2=py27_0
-- pyparsing=2.1.4=py27_0
-- python=2.7.13=0
-- python-dateutil=2.6.0=py27_0
-- pytz=2016.10=py27_0
-- readline=6.2=2
-- redis=3.2.0=0
-- reportlab=3.3.0=py27_0
-- requests=2.12.4=py27_0
-- setuptools=27.2.0=py27_0
-- six=1.10.0=py27_0
-- sqlite=3.13.0=0
-- tk=8.5.18=0
-- werkzeug=0.11.15=py27_0
-- wheel=0.29.0=py27_0
-- xz=5.2.2=1
-- zlib=1.2.8=3
-- bioconductor-biocgenerics=0.20.0=r3.3.2_0
-- bioconductor-biostrings=2.42.1=r3.3.2_0
-- bioconductor-iranges=2.8.2=r3.3.2_0
-- bioconductor-s4vectors=0.12.2=r3.3.2_0
-- bioconductor-xvector=0.14.1=r3.3.2_0
-- bioconductor-zlibbioc=1.20.0=r3.3.2_1
-- biopython=1.70=py27_0
-- blast=2.6.0=boost1.60_0
-- fasttree=2.1.9=2
-- mafft=7.310=0
-- mummer=3.23=4
-- muscle=3.8.1551=2
-- perl-app-cpanminus=1.7039=pl5.22.0_3
-- perl-archive-zip=1.55=3
-- perl-bioperl=1.6.924=4
-- perl-dbi=1.636=0
-- perl-log-log4perl=1.47=1
-- perl-module-build=0.4214=pl5.22.0_3
-- perl-pathtools=3.40=0
-- perl-scalar-list-utils=1.45=2
-- perl-threaded=5.22.0=pl5.22.0_12
-- perl-tie-log4perl=0.1=pl5.22.0_0
-- perl-yaml=1.18=0
-- prodigal=2.6.3=0
-- r-combinat=0.0_8=r3.3.2_0
-- r-fastmatch=1.1_0=r3.3.2_0
-- r-fitdistrplus=1.0_6=r3.3.2_0
-- r-mclust=5.2=r3.3.2_0
-- r-optparse=1.3.2=r3.3.2_0
-- rgi=3.1.1=py27_1
-- trimal=1.4.1=0
-- r-animation=2.5=r3.3.2_0
-- r-ape=4.1=r3.3.2_0
-- r-clustergeneration=1.3.4=r3.3.2_0
-- r-expm=0.999_2=r3.3.2_0
-- r-msm=1.6.4=r3.3.2_0
-- r-phangorn=2.2.0=r3.3.2_0
-- r-phytools=0.6_00=r3.3.2_0
-- r-plotrix=3.6_5=r3.3.2_0
-- r-scatterplot3d=0.3_40=r3.3.2_0
-- isodate=0.5.4=py27_0
-- keepalive=0.5=py27_0
-- mmtf-python=1.0.5=py27_0
-- perl=5.22.0.1=0
-- pyaml=17.7.2=py27_0
-- rdflib=4.2.1=py27_0
-- sparqlwrapper=1.7.6=py27_0
-- bzip2=1.0.6=3
-- cairo=1.14.8=0
-- curl=7.54.1=0
-- fontconfig=2.12.1=3
-- glib=2.50.2=1
-- gmp=6.1.0=0
-- gsl=2.2.1=0
-- harfbuzz=0.9.39=2
-- krb5=1.13.2=0
-- libffi=3.2.1=1
-- libiconv=1.14=0
-- libssh2=1.8.0=0
-- libxml2=2.9.4=0
-- ncurses=5.9=10
-- pango=1.40.3=1
-- pcre=8.39=1
-- pixman=0.34.0=0
-- py=1.4.34=py27_0
-- pytest=3.2.1=py27_0
-- pytest-runner=2.11.1=py27_0
-- pyyaml=3.12=py27_0
-- r=3.3.2=r3.3.2_0
-- r-assertthat=0.1=r3.3.2_4
-- r-base=3.3.2=1
-- r-bitops=1.0_6=r3.3.2_2
-- r-boot=1.3_18=r3.3.2_0
-- r-catools=1.17.1=r3.3.2_2
-- r-class=7.3_14=r3.3.2_0
-- r-cluster=2.0.5=r3.3.2_0
-- r-coda=0.18_1=r3.3.2_0
-- r-codetools=0.2_15=r3.3.2_0
-- r-colorspace=1.3_1=r3.3.2_0
-- r-curl=2.3=r3.3.2_0
-- r-devtools=1.12.0=r3.3.2_0
-- r-dichromat=2.0_0=r3.3.2_2
-- r-digest=0.6.10=r3.3.2_0
-- r-doparallel=1.0.10=r3.3.2_0
-- r-foreach=1.4.3=r3.3.2_0
-- r-foreign=0.8_67=r3.3.2_0
-- r-gdata=2.17.0=r3.3.2_0
-- r-getopt=1.20.0=r3.3.2_0
-- r-ggplot2=2.2.0=r3.3.2_0
-- r-git2r=0.16.0=r3.3.2_0
-- r-gplots=3.0.1=r3.3.2_0
-- r-gridbase=0.4_7=r3.3.2_0
-- r-gtable=0.2.0=r3.3.2_0
-- r-gtools=3.5.0=r3.3.2_0
-- r-httr=1.2.1=r3.3.2_0
-- r-igraph=1.0.1=r3.3.2_0
-- r-irlba=2.1.2=r3.3.2_0
-- r-iterators=1.0.8=r3.3.2_0
-- r-jsonlite=1.1=r3.3.2_0
-- r-kernsmooth=2.23_15=r3.3.2_0
-- r-labeling=0.3=r3.3.2_2
-- r-lattice=0.20_34=r3.3.2_0
-- r-lazyeval=0.2.0=r3.3.2_0
-- r-magrittr=1.5=r3.3.2_2
-- r-maps=3.1.1=r3.3.2_0
-- r-mass=7.3_45=r3.3.2_0
-- r-matrix=1.2_7.1=r3.3.2_0
-- r-memoise=1.0.0=r3.3.2_0
-- r-mgcv=1.8_16=r3.3.2_0
-- r-mime=0.5=r3.3.2_0
-- r-mnormt=1.5_5=r3.3.2_0
-- r-munsell=0.4.3=r3.3.2_0
-- r-mvtnorm=1.0_5=r3.3.2_0
-- r-nlme=3.1_128=r3.3.2_0
-- r-nmf=0.20.6=r3.3.2_0
-- r-nnet=7.3_12=r3.3.2_0
-- r-numderiv=2016.8_1=r3.3.2_0
-- r-openssl=0.9.5=r3.3.2_0
-- r-pkgmaker=0.22=r3.3.2_0
-- r-plyr=1.8.4=r3.3.2_0
-- r-quadprog=1.5_5=r3.3.2_2
-- r-r6=2.2.0=r3.3.2_0
-- r-rcolorbrewer=1.1_2=r3.3.2_3
-- r-rcpp=0.12.8=r3.3.2_0
-- r-recommended=3.3.2=r3.3.2_0
-- r-registry=0.3=r3.3.2_0
-- r-reshape2=1.4.2=r3.3.2_0
-- r-rngtools=1.2.4=r3.3.2_0
-- r-rocr=1.0_7=r3.3.2_0
-- r-rpart=4.1_10=r3.3.2_0
-- r-rstudioapi=0.6=r3.3.2_0
-- r-scales=0.4.1=r3.3.2_0
-- r-spatial=7.3_11=r3.3.2_0
-- r-stringi=1.1.2=r3.3.2_0
-- r-stringr=1.1.0=r3.3.2_0
-- r-survival=2.40_1=r3.3.2_0
-- r-tibble=1.2=r3.3.2_0
-- r-whisker=0.3_2=r3.3.2_2
-- r-withr=1.0.2=r3.3.2_0
-- r-xtable=1.8_2=r3.3.2_0
-- rpy2=2.8.5=py27r3.3.2_2
-- singledispatch=3.4.0.3=py27_0
-- yaml=0.1.6=0
-- panseq=3.1.1=0
-- bower=1.7.6=0
-- nodejs=4.4.0=0
-- phylotyper=0.1.1=py27r332hefc3a68_0
-- pip:
-  - alembic==0.8.10
-  - arrow==0.10.0
-  - blinker==1.4
-  - contextlib2==0.5.4
-  - dominate==2.3.1
-  - flask-bootstrap==3.3.7.1
-  - flask-bower==1.2.1
-  - flask-cors==3.0.2
-  - flask-migrate==2.0.3
-  - flask-recaptcha==0.4.2
-  - flask-script==2.0.5
-  - flask-sqlalchemy==2.1
-  - flask-uploads==0.2.1
-  - flask-wtf==0.14.2
-  - gunicorn==19.6.0
-  - mako==1.0.6
-  - python-editor==1.0.3
-  - raven==5.32.0
-  - rdflib-jsonld==0.4.0
-  - rq==0.7.1
-  - rq-dashboard==0.3.7
-  - scikit-learn==0.18.2
-  - scipy==0.19.0
-  - sklearn==0.0
-  - sqlalchemy==1.1.5
-  - uwsgi==2.0.14
-  - visitor==0.1.3
-  - wtforms==2.1
-  - xlrd==1.1.0
+  - boost=1.60.0=py27_0
+  - bzip2=1.0.6=3
+  - cairo=1.14.8=0
+  - click=6.6=py27_0
+  - curl=7.54.1=0
+  - flask=0.12=py27_0
+  - fontconfig=2.12.1=3
+  - freetype=2.5.5=2
+  - glib=2.50.2=1
+  - gmp=6.1.0=0
+  - gsl=2.2.1=0
+  - harfbuzz=0.9.39=2
+  - html5lib=0.999=py27_0
+  - icu=54.1=0
+  - itsdangerous=0.24=py27_0
+  - jbig=2.1=0
+  - jinja2=2.9.4=py27_0
+  - jpeg=9b=0
+  - krb5=1.13.2=0
+  - libffi=3.2.1=1
+  - libgcc=5.2.0=0
+  - libiconv=1.14=0
+  - libpng=1.6.27=0
+  - libpq=9.5.4=0
+  - libssh2=1.8.0=0
+  - libtiff=4.0.6=3
+  - libxml2=2.9.4=0
+  - markupsafe=0.23=py27_2
+  - mkl=2017.0.1=0
+  - msgpack-python=0.4.8=py27_0
+  - ncurses=5.9=10
+  - numpy=1.11.3=py27_0
+  - openssl=1.0.2j=0
+  - pango=1.40.3=1
+  - pcre=8.39=1
+  - pillow=4.0.0=py27_0
+  - pip=9.0.1=py27_1
+  - pixman=0.34.0=0
+  - psycopg2=2.6.2=py27_0
+  - py=1.4.34=py27_0
+  - pyparsing=2.1.4=py27_0
+  - pytest=3.2.1=py27_0
+  - pytest-runner=2.11.1=py27_0
+  - python=2.7.13=0
+  - python-dateutil=2.6.0=py27_0
+  - pytz=2016.10=py27_0
+  - pyyaml=3.12=py27_0
+  - readline=6.2=2
+  - redis=3.2.0=0
+  - reportlab=3.3.0=py27_0
+  - requests=2.12.4=py27_0
+  - setuptools=27.2.0=py27_0
+  - singledispatch=3.4.0.3=py27_0
+  - six=1.10.0=py27_0
+  - sqlite=3.13.0=0
+  - tk=8.5.18=0
+  - werkzeug=0.11.15=py27_0
+  - wheel=0.29.0=py27_0
+  - xz=5.2.2=1
+  - yaml=0.1.6=0
+  - zlib=1.2.8=3
+  - bcftools=1.6=0
+  - bioconductor-biocgenerics=0.20.0=r3.3.2_0
+  - bioconductor-biostrings=2.42.1=r3.3.2_0
+  - bioconductor-iranges=2.8.2=r3.3.2_0
+  - bioconductor-s4vectors=0.12.2=r3.3.2_0
+  - bioconductor-xvector=0.14.1=r3.3.2_0
+  - bioconductor-zlibbioc=1.20.0=r3.3.2_1
+  - blast=2.6.0=boost1.60_0
+  - bowtie2=2.3.4=py27pl5.22.0_0
+  - fasttree=2.1.9=2
+  - mafft=7.310=0
+  - mash=1.1=0
+  - mummer=3.23=4
+  - muscle=3.8.1551=2
+  - perl-app-cpanminus=1.7039=pl5.22.0_3
+  - perl-archive-zip=1.55=3
+  - perl-bioperl=1.6.924=4
+  - perl-dbi=1.636=0
+  - perl-log-log4perl=1.47=1
+  - perl-module-build=0.4214=pl5.22.0_3
+  - perl-pathtools=3.40=0
+  - perl-scalar-list-utils=1.45=2
+  - perl-threaded=5.22.0=pl5.22.0_12
+  - perl-tie-log4perl=0.1=pl5.22.0_0
+  - perl-yaml=1.18=0
+  - prodigal=2.6.3=0
+  - r-combinat=0.0_8=r3.3.2_0
+  - r-fastmatch=1.1_0=r3.3.2_0
+  - r-fitdistrplus=1.0_6=r3.3.2_0
+  - r-mclust=5.2=r3.3.2_0
+  - r-optparse=1.3.2=r3.3.2_0
+  - rgi=3.1.1=py27_1
+  - samtools=1.7=0
+  - seqtk=1.2=0
+  - tbb=4.4_20150728=0
+  - trimal=1.4.1=0
+  - biopython=1.70=py27_0
+  - r-animation=2.5=r3.3.2_0
+  - r-ape=4.1=r3.3.2_0
+  - r-clustergeneration=1.3.4=r3.3.2_0
+  - r-expm=0.999_2=r3.3.2_0
+  - r-msm=1.6.4=r3.3.2_0
+  - r-phangorn=2.2.0=r3.3.2_0
+  - r-phytools=0.6_00=r3.3.2_0
+  - r-plotrix=3.6_5=r3.3.2_0
+  - r-scatterplot3d=0.3_40=r3.3.2_0
+  - isodate=0.5.4=py27_0
+  - keepalive=0.5=py27_0
+  - mmtf-python=1.0.5=py27_0
+  - perl=5.22.0.1=0
+  - pyaml=17.7.2=py27_0
+  - rdflib=4.2.1=py27_0
+  - sparqlwrapper=1.7.6=py27_0
+  - backports=1.0=py27h63c9359_1
+  - backports.weakref=1.0.post1=py27h0df1112_0
+  - future=0.16.0=py27_1
+  - libgcc-ng=7.2.0=h7cc24e2_2
+  - libstdcxx-ng=7.2.0=h7a57d05_2
+  - pandas=0.21.1=py27h38cdd7d_0
+  - r=3.3.2=r3.3.2_0
+  - r-assertthat=0.1=r3.3.2_4
+  - r-base=3.3.2=1
+  - r-bitops=1.0_6=r3.3.2_2
+  - r-boot=1.3_18=r3.3.2_0
+  - r-catools=1.17.1=r3.3.2_2
+  - r-class=7.3_14=r3.3.2_0
+  - r-cluster=2.0.5=r3.3.2_0
+  - r-coda=0.18_1=r3.3.2_0
+  - r-codetools=0.2_15=r3.3.2_0
+  - r-colorspace=1.3_1=r3.3.2_0
+  - r-curl=2.3=r3.3.2_0
+  - r-devtools=1.12.0=r3.3.2_0
+  - r-dichromat=2.0_0=r3.3.2_2
+  - r-digest=0.6.10=r3.3.2_0
+  - r-doparallel=1.0.10=r3.3.2_0
+  - r-foreach=1.4.3=r3.3.2_0
+  - r-foreign=0.8_67=r3.3.2_0
+  - r-gdata=2.17.0=r3.3.2_0
+  - r-getopt=1.20.0=r3.3.2_0
+  - r-ggplot2=2.2.0=r3.3.2_0
+  - r-git2r=0.16.0=r3.3.2_0
+  - r-gplots=3.0.1=r3.3.2_0
+  - r-gridbase=0.4_7=r3.3.2_0
+  - r-gtable=0.2.0=r3.3.2_0
+  - r-gtools=3.5.0=r3.3.2_0
+  - r-httr=1.2.1=r3.3.2_0
+  - r-igraph=1.0.1=r3.3.2_0
+  - r-irlba=2.1.2=r3.3.2_0
+  - r-iterators=1.0.8=r3.3.2_0
+  - r-jsonlite=1.1=r3.3.2_0
+  - r-kernsmooth=2.23_15=r3.3.2_0
+  - r-labeling=0.3=r3.3.2_2
+  - r-lattice=0.20_34=r3.3.2_0
+  - r-lazyeval=0.2.0=r3.3.2_0
+  - r-magrittr=1.5=r3.3.2_2
+  - r-maps=3.1.1=r3.3.2_0
+  - r-mass=7.3_45=r3.3.2_0
+  - r-matrix=1.2_7.1=r3.3.2_0
+  - r-memoise=1.0.0=r3.3.2_0
+  - r-mgcv=1.8_16=r3.3.2_0
+  - r-mime=0.5=r3.3.2_0
+  - r-mnormt=1.5_5=r3.3.2_0
+  - r-munsell=0.4.3=r3.3.2_0
+  - r-mvtnorm=1.0_5=r3.3.2_0
+  - r-nlme=3.1_128=r3.3.2_0
+  - r-nmf=0.20.6=r3.3.2_0
+  - r-nnet=7.3_12=r3.3.2_0
+  - r-numderiv=2016.8_1=r3.3.2_0
+  - r-openssl=0.9.5=r3.3.2_0
+  - r-pkgmaker=0.22=r3.3.2_0
+  - r-plyr=1.8.4=r3.3.2_0
+  - r-quadprog=1.5_5=r3.3.2_2
+  - r-r6=2.2.0=r3.3.2_0
+  - r-rcolorbrewer=1.1_2=r3.3.2_3
+  - r-rcpp=0.12.8=r3.3.2_0
+  - r-recommended=3.3.2=r3.3.2_0
+  - r-registry=0.3=r3.3.2_0
+  - r-reshape2=1.4.2=r3.3.2_0
+  - r-rngtools=1.2.4=r3.3.2_0
+  - r-rocr=1.0_7=r3.3.2_0
+  - r-rpart=4.1_10=r3.3.2_0
+  - r-rstudioapi=0.6=r3.3.2_0
+  - r-scales=0.4.1=r3.3.2_0
+  - r-spatial=7.3_11=r3.3.2_0
+  - r-stringi=1.1.2=r3.3.2_0
+  - r-stringr=1.1.0=r3.3.2_0
+  - r-survival=2.40_1=r3.3.2_0
+  - r-tibble=1.2=r3.3.2_0
+  - r-whisker=0.3_2=r3.3.2_2
+  - r-withr=1.0.2=r3.3.2_0
+  - r-xtable=1.8_2=r3.3.2_0
+  - rpy2=2.8.5=py27r3.3.2_2
+  - panseq=3.1.1=0
+  - bower=1.7.6=0
+  - nodejs=4.4.0=0
+  - ectyper=0.0.9=py27_0
+  - subprocess32=3.5.0=py27_0
+  - phylotyper=0.1.1=py27r332hefc3a68_0
+  - pip:
+    - alembic==0.8.10
+    - arrow==0.10.0
+    - blinker==1.4
+    - contextlib2==0.5.4
+    - dominate==2.3.1
+    - flask-bootstrap==3.3.7.1
+    - flask-bower==1.2.1
+    - flask-cors==3.0.2
+    - flask-migrate==2.0.3
+    - flask-recaptcha==0.4.2
+    - flask-script==2.0.5
+    - flask-sqlalchemy==2.1
+    - flask-uploads==0.2.1
+    - flask-wtf==0.14.2
+    - gunicorn==19.6.0
+    - mako==1.0.6
+    - python-editor==1.0.3
+    - raven==5.32.0
+    - rdflib-jsonld==0.4.0
+    - rq==0.7.1
+    - rq-dashboard==0.3.7
+    - scikit-learn==0.18.2
+    - scipy==0.19.0
+    - sklearn==0.0
+    - sqlalchemy==1.1.5
+    - uwsgi==2.0.14
+    - visitor==0.1.3
+    - wtforms==2.1
+    - xlrd==1.1.0
 prefix: /home/matt/anaconda3/envs/backend
 

From 63fa0896e70c78e3ecaa295b8c1232a1a9e15c49 Mon Sep 17 00:00:00 2001
From: Kevin Le <kevin.kent.le@gmail.com>
Date: Wed, 14 Feb 2018 01:39:08 -0500
Subject: [PATCH 5/7] ADD: jsonmodels

---
 app/environment.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/app/environment.yml b/app/environment.yml
index 331c1ec6..a4187a97 100644
--- a/app/environment.yml
+++ b/app/environment.yml
@@ -225,6 +225,7 @@ dependencies:
     - flask-uploads==0.2.1
     - flask-wtf==0.14.2
     - gunicorn==19.6.0
+    - jsonmodels==2.3
     - mako==1.0.6
     - python-editor==1.0.3
     - raven==5.32.0

From 147f4b55626b4728fe49148b2804d796a8c2b657 Mon Sep 17 00:00:00 2001
From: Kevin Le <kevin.kent.le@gmail.com>
Date: Wed, 14 Feb 2018 01:45:39 -0500
Subject: [PATCH 6/7] DEL: nodejs and bower

---
 app/environment.yml | 2 --
 1 file changed, 2 deletions(-)

diff --git a/app/environment.yml b/app/environment.yml
index a4187a97..d0385cea 100644
--- a/app/environment.yml
+++ b/app/environment.yml
@@ -204,8 +204,6 @@ dependencies:
   - r-xtable=1.8_2=r3.3.2_0
   - rpy2=2.8.5=py27r3.3.2_2
   - panseq=3.1.1=0
-  - bower=1.7.6=0
-  - nodejs=4.4.0=0
   - ectyper=0.0.9=py27_0
   - subprocess32=3.5.0=py27_0
   - phylotyper=0.1.1=py27r332hefc3a68_0

From 952cce66d9f6edaf4c0217fbdbb1f9014d938cda Mon Sep 17 00:00:00 2001
From: Kevin Le <kevin.kent.le@gmail.com>
Date: Sun, 18 Feb 2018 17:12:46 -0500
Subject: [PATCH 7/7] ADD: dill

---
 app/environment.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/app/environment.yml b/app/environment.yml
index d0385cea..0fea274d 100644
--- a/app/environment.yml
+++ b/app/environment.yml
@@ -212,6 +212,7 @@ dependencies:
     - arrow==0.10.0
     - blinker==1.4
     - contextlib2==0.5.4
+    - dill==0.2.7.1
     - dominate==2.3.1
     - flask-bootstrap==3.3.7.1
     - flask-bower==1.2.1