update env for travis

maxibor · Jun 27, 2019 · b18f982 · b18f982
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commit b18f982
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Showing 2 changed files with 19 additions and 152 deletions.
diff --git a/conda_env.yaml b/conda_env.yaml
@@ -5,156 +5,20 @@ channels:
   - conda-forge
   - defaults
 dependencies:
-  - appnope=0.1.0=py36_1000
-  - argtable2=2.13=h1de35cc_1001
-  - asn1crypto=0.24.0=py36_1003
-  - atomicwrites=1.3.0=py_0
-  - attrs=19.1.0=py_0
-  - backcall=0.1.0=py_0
-  - blas=1.0=mkl
-  - bz2file=0.98=py_0
-  - ca-certificates=2019.1.23=0
-  - cachecontrol=0.12.5=py_0
-  - certifi=2018.11.29=py36_1000
-  - cffi=1.11.5=py36h342bebf_1001
-  - chardet=3.0.4=py36_1003
-  - clustalo=1.2.4=hfc679d8_2
-  - contextlib2=0.5.5=py_2
-  - coverage=4.5.3=py36h1de35cc_0
-  - coveralls=1.8.1=py_0
-  - cryptography=2.5=py36hc2b1221_1
-  - cycler=0.10.0=py_1
-  - dbus=1.13.6=h90a0687_0
-  - decorator=4.3.2=py_0
-  - dialigntx=1.0.2=h9803431_0
-  - docopt=0.6.2=py_1
-  - ete3=3.1.1=py_1
-  - ete_toolchain=3.0.0=h73706c9_0
-  - expat=2.2.6=h0a44026_0
-  - fasttree=2.1.10=h1de35cc_3
-  - fontconfig=2.13.0=hce039c3_6
-  - freetype=2.9.1=h24853df_1006
-  - future=0.17.1=py36_1000
-  - gettext=0.19.8.1=h46ab8bc_1002
-  - glib=2.56.2=h67dad55_1001
-  - gst-plugins-base=1.14.0=h29ae3d9_1
-  - gstreamer=1.14.0=h415b841_1
-  - hdmedians=0.13=py36h917ab60_1000
-  - icu=58.2=h0a44026_1000
-  - idna=2.8=py36_1000
-  - importlib_metadata=0.18=py36_0
-  - intel-openmp=2019.1=144
-  - ipython=7.2.0=py36h24bf2e0_1000
-  - ipython_genutils=0.2.0=py_1
-  - iqtree=1.5.5=1
-  - jedi=0.13.2=py36_1000
-  - jpeg=9b=h470a237_3
-  - kalign=2.03=hf9ccdb1_0
-  - kiwisolver=1.0.1=py36h04f5b5a_1002
-  - libblas=3.8.0=5_hd44dcd8_netlib
-  - libcblas=3.8.0=5_hd44dcd8_netlib
-  - libcxx=8.0.0=2
-  - libcxxabi=8.0.0=2
-  - libedit=3.1.20181209=hb402a30_0
-  - libffi=3.2.1=h6de7cb9_1006
-  - libgcc=4.8.5=hdbeacc1_10
-  - libgfortran=3.0.1=0
-  - libiconv=1.15=h01d97ff_1005
-  - liblapack=3.8.0=5_hd44dcd8_netlib
-  - libpng=1.6.36=ha441bb4_1000
-  - libuuid=1.0.3=1
-  - libxcb=1.13=h1de35cc_1002
-  - libxml2=2.9.9=hd80cff7_0
-  - libxslt=1.1.33=h33a18ac_0
-  - lockfile=0.12.2=py_1
-  - lxml=4.3.1=py36h7166777_0
-  - mafft=6.861=h419a82f_0
-  - matplotlib=3.0.2=py36_1002
-  - matplotlib-base=3.0.2=py36hf043ca5_1002
-  - mkl=2018.0.3=1
-  - mkl_fft=1.0.6=py36_0
-  - mkl_random=1.0.1=py36_0
-  - more-itertools=4.3.0=py36_1000
-  - msgpack-python=0.6.1=py36h04f5b5a_0
-  - muscle=3.8.31=0
-  - natsort=5.5.0=py_0
-  - ncurses=6.1=h0a44026_1002
-  - nose=1.3.7=py36_1002
-  - numpy=1.16.4=py36h6b0580a_0
-  - numpy-base=1.15.0=py36h1bbf6aa_0
-  - openssl=1.1.1a=h1de35cc_1001
-  - packaging=19.0=py_0
-  - paml=4.8=hace986f_0
-  - pandas=0.24.1=py36h0a44026_0
-  - parso=0.3.2=py_0
-  - pcre=8.42=h378b8a2_0
-  - pexpect=4.6.0=py36_1000
-  - phylobayes=4.1c=hf7d3357_0
-  - phyml=20160115.patched=h98c79a7_0
-  - pickleshare=0.7.5=py36_1000
-  - pip=19.0.1=py36_0
-  - pluggy=0.12.0=py_0
-  - pmodeltest=1.4=py36h1cf33f0_0
-  - prompt_toolkit=2.0.9=py_0
-  - pthread-stubs=0.4=h1de35cc_1001
-  - ptyprocess=0.6.0=py_1001
-  - py=1.8.0=py_0
-  - pycparser=2.19=py36_1
-  - pygments=2.3.1=py_0
-  - pyopenssl=19.0.0=py36_0
-  - pyparsing=2.3.1=py_0
-  - pyqt=5.9.2=py36h2a560b1_0
-  - pysocks=1.6.8=py36_1002
-  - pytest=4.6.3=py36_0
-  - pytest-cov=2.7.1=py_0
-  - python=3.6.8=haf84260_0
-  - python-dateutil=2.7.5=py_0
-  - pytz=2018.9=py_0
-  - pyyaml=5.1.1=py36h01d97ff_0
-  - qt=5.9.7=h468cd18_1
-  - raxml=8.2.11=hab3343f_0
-  - readline=7.0=hcfe32e1_1001
-  - requests=2.21.0=py36_1000
-  - scikit-bio=0.5.5=py36h917ab60_1000
-  - scikit-learn=0.20.1=py36h4f467ca_0
-  - scipy=1.1.0=py36h28f7352_1
-  - setuptools=40.8.0=py36_0
-  - sip=4.19.8=py36h0a44026_1000
-  - six=1.12.0=py36_1000
-  - slr=1.4.3=h3de9e2b_0
-  - sqlite=3.26.0=h1765d9f_1001
-  - t_coffee=11.00=h5f19bac_0
-  - tk=8.6.8=ha441bb4_1000
-  - tornado=5.1.1=py36h1de35cc_1000
-  - traitlets=4.3.2=py36_1000
-  - trimal=1.4.1=h04f5b5a_3
-  - urllib3=1.24.1=py36_1000
-  - wcwidth=0.1.7=py_1
-  - wheel=0.32.3=py36_0
-  - xorg-kbproto=1.0.7=h1de35cc_1002
-  - xorg-libice=1.0.9=h01d97ff_1004
-  - xorg-libsm=1.2.3=h01d97ff_1000
-  - xorg-libx11=1.6.7=h1de35cc_1000
-  - xorg-libxau=1.0.9=h1de35cc_0
-  - xorg-libxdmcp=1.1.3=h01d97ff_0
-  - xorg-libxext=1.3.4=h01d97ff_0
-  - xorg-libxrender=0.9.10=h01d97ff_1002
-  - xorg-renderproto=0.11.1=h1de35cc_1002
-  - xorg-xextproto=7.3.0=h1de35cc_1002
-  - xorg-xproto=7.0.31=h1de35cc_1007
-  - xz=5.2.4=h1de35cc_1001
-  - yaml=0.1.7=h1de35cc_1001
-  - zipp=0.5.1=py_0
-  - zlib=1.2.11=h1de35cc_1004
+  - coverage=4.5.3
+  - coveralls=1.8.1
+  - ete3=3.1.1
+  - numpy=1.16.4
+  - pandas=0.24.1
+  - pip=19.0.1
+  - pytest=4.6.3
+  - pytest-cov=2.7.1
+  - python=3.6.8
+  - requests=2.21.0
+  - scikit-bio=0.5.5
+  - scikit-learn=0.20.1
+  - scipy=1.1.0
   - pip:
-    - altair==2.3.0
-    - entrypoints==0.3
-    - jinja2==2.10
-    - jsonschema==2.6.0
-    - llvmlite==0.27.1
-    - markupsafe==1.1.0
-    - numba==0.42.1
-    - toolz==0.9.0
     - umap-learn==0.3.7
 prefix: /Users/borry/miniconda3/envs/sourcepredict
 
diff --git a/tests/test_ml.py b/tests/test_ml.py
@@ -142,9 +142,12 @@ def test_sourcemap_embed_UMAP(sm):
     sm.compute_distance(distance_method='weighted_unifrac', rank='species')
     sm.embed(n_comp=2, method='UMAP', seed=42, out_csv=None)
 
-    assert generate_pd_md5(sm.my_embed) == '76fa6131ff850228da5226e560dc0bfd'
-    assert generate_pd_md5(sm.ref_t) == 'ee35d3c877530e8ed361c3c71475b026'
-    assert generate_pd_md5(sm.sink_t) == 'ed4e993c4ee284735d9fd6cd4e6b71eb'
+    assert generate_pd_md5(sm.my_embed) in [
+        '76fa6131ff850228da5226e560dc0bfd', 'bc318da9b97c67995cabb6871d5df0c6']
+    assert generate_pd_md5(sm.ref_t) in [
+        'ee35d3c877530e8ed361c3c71475b026', '6b5f99a377e863b901f8457a56539eaa']
+    assert generate_pd_md5(sm.sink_t) in [
+        'ed4e993c4ee284735d9fd6cd4e6b71eb', 'de2d0e5734898f8bc91bef1f5431ad27']
 
 
 def test_sourcemap_embed_MDS(sm):