forked from EMBL-PKU/BASALT
-
Notifications
You must be signed in to change notification settings - Fork 0
/
basalt_env.yml
286 lines (286 loc) · 9.01 KB
/
basalt_env.yml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
name: BASALT
channels:
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda/
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/main/
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge/
- linbin203
- bioconda
- conda-forge
- defaults
dependencies:
- basalt=1.0.1=0
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- _r-mutex=1.0.1=anacondar_1
- _sysroot_linux-64_curr_repodata_hack=3=h69a702a_13
- _tflow_select=2.3.0=eigen
- absl-py=1.3.0=py37h06a4308_0
- aiohttp=3.7.4.post0=py37h7f8727e_2
- alsa-lib=1.1.5=h516909a_1002
- arpack=3.7.0=hc6cf775_2
- astor=0.8.1=py37h06a4308_0
- astunparse=1.6.3=py_0
- async-timeout=3.0.1=py37h06a4308_0
- attrs=22.1.0=py37h06a4308_0
- bedtools=2.31.0=hf5e1c6e_2
- binutils_impl_linux-64=2.36.1=h193b22a_2
- binutils_linux-64=2.36=hf3e587d_33
- biolib=0.1.6=py_0
- biopython=1.76=py37h516909a_0
- blas=1.0=mkl
- blast=2.14.0=pl5321h6f7f691_2
- blinker=1.4=py37h06a4308_0
- boost-cpp=1.70.0=ha2d47e9_1
- bowtie2=2.5.1=py37hb24965f_1
- brotli-python=1.0.9=py37hd23a5d3_7
- bwa=0.7.17=he4a0461_11
- bwidget=1.9.14=ha770c72_1
- bzip2=1.0.8=h7f98852_4
- c-ares=1.19.1=h5eee18b_0
- ca-certificates=2023.5.7=hbcca054_0
- cachetools=4.2.2=pyhd3eb1b0_0
- cairo=1.14.12=h80bd089_1005
- certifi=2023.5.7=pyhd8ed1ab_0
- cffi=1.14.4=py37h11fe52a_0
- chardet=4.0.0=py37h06a4308_1003
- checkm-genome=1.1.3=py_1
- click=7.1.2=pyh9f0ad1d_0
- colorama=0.4.6=pyhd8ed1ab_0
- coloredlogs=15.0.1=pyhd8ed1ab_3
- concoct=1.1.0=py37h5f20ad3_2
- cryptography=39.0.1=py37h9ce1e76_0
- cuda-version=11.8=h70ddcb2_2
- cudatoolkit=11.8.0=h37601d7_11
- cudnn=8.8.0.121=h0800d71_1
- curl=7.68.0=hf8cf82a_0
- cycler=0.11.0=pyhd8ed1ab_0
- cython=0.29.32=py37hd23a5d3_0
- dendropy=4.6.1=pyhdfd78af_0
- diamond=2.0.4=h56fc30b_0
- entrez-direct=16.2=he881be0_1
- expat=2.5.0=hcb278e6_1
- fontconfig=2.14.2=h14ed4e7_0
- fraggenescan=1.31=h031d066_6
- freetype=2.12.1=hca18f0e_1
- future=0.18.2=py37h89c1867_5
- gast=0.3.3=py_0
- gawk=5.1.0=h7f98852_0
- gcc_impl_linux-64=7.5.0=habd7529_20
- gcc_linux-64=7.5.0=h47867f9_33
- gettext=0.21.1=h27087fc_0
- gfortran_impl_linux-64=7.5.0=h56cb351_20
- gfortran_linux-64=7.5.0=h78c8a43_33
- giflib=5.2.1=h0b41bf4_3
- glib=2.56.2=had28632_1001
- glpk=5.0=h445213a_0
- gmp=6.2.1=h58526e2_0
- google-auth=2.6.0=pyhd3eb1b0_0
- google-auth-oauthlib=0.4.4=pyhd3eb1b0_0
- google-pasta=0.2.0=pyhd3eb1b0_0
- graphite2=1.3.13=h58526e2_1001
- grpcio=1.42.0=py37hce63b2e_0
- gsl=2.6=he838d99_2
- gxx_impl_linux-64=7.5.0=hd0bb8aa_20
- gxx_linux-64=7.5.0=h555fc39_33
- h5py=2.10.0=py37hd6299e0_1
- harfbuzz=1.9.0=he243708_1001
- hdf5=1.10.6=hb1b8bf9_0
- hmmer=3.1b2=3
- htslib=1.9=h244ad75_9
- humanfriendly=10.0=py37h89c1867_2
- icu=58.2=hf484d3e_1000
- idba=1.1.3=1
- importlib-metadata=4.11.3=py37h06a4308_0
- intel-openmp=2021.4.0=h06a4308_3561
- joblib=1.3.0=pyhd8ed1ab_1
- jpeg=9e=h0b41bf4_3
- k8=0.2.5=hdcf5f25_4
- keras-preprocessing=1.1.2=pyhd3eb1b0_0
- kernel-headers_linux-64=3.10.0=h4a8ded7_13
- kiwisolver=1.4.4=py37h7cecad7_0
- krb5=1.16.4=h2fd8d38_0
- lcms2=2.12=hddcbb42_0
- ld_impl_linux-64=2.36.1=hea4e1c9_2
- libblas=3.9.0=12_linux64_mkl
- libcblas=3.9.0=12_linux64_mkl
- libcurl=7.68.0=hda55be3_0
- libdeflate=1.6=h516909a_0
- libedit=3.1.20191231=h46ee950_2
- libexpat=2.5.0=hcb278e6_1
- libffi=3.2.1=he1b5a44_1007
- libgcc=7.2.0=h69d50b8_2
- libgcc-devel_linux-64=7.5.0=hda03d7c_20
- libgcc-ng=13.1.0=he5830b7_0
- libgfortran-ng=7.5.0=h14aa051_20
- libgfortran4=7.5.0=h14aa051_20
- libgomp=13.1.0=he5830b7_0
- libhwloc=2.9.1=hd6dc26d_0
- libiconv=1.17=h166bdaf_0
- libidn2=2.3.4=h166bdaf_0
- liblapack=3.9.0=12_linux64_mkl
- libpng=1.6.39=h753d276_0
- libprotobuf=3.16.0=h780b84a_0
- libssh2=1.10.0=haa6b8db_3
- libstdcxx-devel_linux-64=7.5.0=hb016644_20
- libstdcxx-ng=13.1.0=hfd8a6a1_0
- libtiff=4.2.0=hf544144_3
- libunistring=0.9.10=h7f98852_0
- libuuid=2.38.1=h0b41bf4_0
- libwebp-base=1.3.1=hd590300_0
- libxcb=1.15=h0b41bf4_0
- libxml2=2.10.3=hcbfbd50_0
- libzlib=1.2.13=hd590300_5
- llvm-openmp=8.0.1=hc9558a2_0
- magma=2.5.4=hc72dce7_4
- make=4.3=hd18ef5c_1
- markdown=3.4.1=py37h06a4308_0
- markupsafe=2.1.1=py37h7f8727e_0
- matplotlib-base=3.4.2=py37hdd32ed1_0
- maxbin2=2.2.7=hdbdd923_5
- metabat2=2.15=h137b6e9_0
- metabinner=1.4.4=hdfd78af_0
- metis=5.1.0=h58526e2_1006
- miniasm=0.3=he4a0461_2
- minimap2=2.26=he4a0461_1
- mkl=2021.4.0=h06a4308_640
- mmseqs2=13.45111=h95f258a_1
- mpfr=4.2.0=hb012696_0
- multidict=6.0.2=py37h5eee18b_0
- ncbi-vdb=2.11.0=h1b792b2_1
- nccl=2.18.3.1=h12f7317_0
- ncurses=6.1=hf484d3e_1002
- ninja=1.11.1=h924138e_0
- nose=1.3.7=py_1006
- numexpr=2.7.3=py37hdc94413_0
- numpy=1.18.1=py37h8960a57_1
- oauthlib=3.2.1=py37h06a4308_0
- olefile=0.46=pyh9f0ad1d_1
- openjdk=11.0.1=h600c080_1018
- openjpeg=2.4.0=hb52868f_1
- openmp=8.0.1=0
- openssl=1.1.1u=hd590300_0
- opt_einsum=3.3.0=pyhd3eb1b0_1
- pandas=1.0.1=py37h0573a6f_0
- pango=1.40.14=hf0c64fd_1003
- pcre=8.45=h9c3ff4c_0
- perl=5.26.2=h36c2ea0_1008
- perl-archive-tar=2.32=pl526_0
- perl-carp=1.38=pl526_3
- perl-common-sense=3.74=pl526_2
- perl-compress-raw-bzip2=2.087=pl526he1b5a44_0
- perl-compress-raw-zlib=2.087=pl526hc9558a2_0
- perl-encode=2.88=pl526_1
- perl-encode-locale=1.05=pl526_6
- perl-exporter=5.72=pl526_1
- perl-exporter-tiny=1.002001=pl526_0
- perl-extutils-makemaker=7.36=pl526_1
- perl-io-compress=2.087=pl526he1b5a44_0
- perl-io-zlib=1.10=pl526_2
- perl-json=4.02=pl526_0
- perl-json-xs=2.34=pl526h6bb024c_3
- perl-list-moreutils=0.428=pl526_1
- perl-list-moreutils-xs=0.428=pl526_0
- perl-lwp-simple=6.15=pl526h470a237_4
- perl-parent=0.236=pl526_1
- perl-pathtools=3.75=pl526h14c3975_1
- perl-scalar-list-utils=1.52=pl526h516909a_0
- perl-types-serialiser=1.0=pl526_2
- perl-xsloader=0.24=pl526_0
- pillow=8.2.0=py37h4600e1f_1
- pilon=1.24=hdfd78af_0
- pip=23.1.2=pyhd8ed1ab_0
- pixman=0.34.0=h14c3975_1003
- pplacer=1.1.alpha19=h9ee0642_2
- prodigal=2.6.3=h031d066_6
- protobuf=3.16.0=py37hcd2ae1e_0
- pthread-stubs=0.4=h36c2ea0_1001
- pyasn1=0.4.8=pyhd3eb1b0_0
- pyasn1-modules=0.2.8=py_0
- pycparser=2.21=pyhd8ed1ab_0
- pyjwt=2.4.0=py37h06a4308_0
- pyopenssl=23.0.0=py37h06a4308_0
- pyparsing=3.1.0=pyhd8ed1ab_0
- pysam=0.16.0=py37ha9a96c6_0
- pysocks=1.7.1=py37h89c1867_5
- python=3.7.6=h0371630_2
- python-dateutil=2.8.2=pyhd8ed1ab_0
- python-igraph=0.10.1=py37h24ddbbb_1
- python_abi=3.7=2_cp37m
- pytorch=1.9.0=cuda112py37hcb91bf2_1
- pytz=2023.3=pyhd8ed1ab_0
- pyyaml=6.0=py37h540881e_4
- r-base=3.5.1=he45234b_1005
- r-bitops=1.0_6=r35hcdcec82_1003
- r-catools=1.17.1.4=r35h0357c0b_0
- r-gdata=2.18.0=r35h6115d3f_1002
- r-gplots=3.0.3=r35h6115d3f_0
- r-gtools=3.8.2=r35hcdcec82_0
- r-kernsmooth=2.23_17=r35hfa343cc_0
- racon=1.5.0=h21ec9f0_2
- readline=7.0=hf8c457e_1001
- rsa=4.7.2=pyhd3eb1b0_1
- samtools=1.9=h10a08f8_12
- scipy=1.4.1=py37ha3d9a3c_3
- semibin=1.5.1=pyhdfd78af_0
- setuptools=68.0.0=pyhd8ed1ab_0
- six=1.16.0=pyh6c4a22f_0
- sleef=3.5.1=h9b69904_2
- spades=3.15.5=h95f258a_1
- sqlite=3.31.1=h7b6447c_0
- suitesparse=5.10.1=h9e50725_1
- sysroot_linux-64=2.17=h4a8ded7_13
- tar=1.34=hb2e2bae_1
- tbb=2021.9.0=hf52228f_0
- tensorboard=2.10.0=py37h06a4308_0
- tensorboard-data-server=0.6.1=py37h52d8a92_0
- tensorboard-plugin-wit=1.8.1=py37h06a4308_0
- tensorboardx=2.5.1=pyhd8ed1ab_0
- tensorflow=2.3.0=eigen_py37h189e6a2_0
- tensorflow-base=2.3.0=eigen_py37h3b305d7_0
- termcolor=2.1.0=py37h06a4308_0
- texttable=1.6.7=pyhd8ed1ab_0
- tk=8.6.12=h27826a3_0
- tktable=2.10=hb7b940f_3
- tornado=6.2=py37h540881e_0
- typing-extensions=4.7.1=hd8ed1ab_0
- typing_extensions=4.7.1=pyha770c72_0
- unicycler=0.5.0=py37h09c1ff4_2
- werkzeug=2.2.2=py37h06a4308_0
- wget=1.20.3=ha56f1ee_1
- wheel=0.40.0=pyhd8ed1ab_0
- wrapt=1.14.1=py37h5eee18b_0
- xorg-fixesproto=5.0=h7f98852_1002
- xorg-inputproto=2.3.2=h7f98852_1002
- xorg-kbproto=1.0.7=h7f98852_1002
- xorg-libice=1.1.1=hd590300_0
- xorg-libsm=1.2.4=h7391055_0
- xorg-libx11=1.8.6=h8ee46fc_0
- xorg-libxau=1.0.11=hd590300_0
- xorg-libxdmcp=1.1.3=h7f98852_0
- xorg-libxext=1.3.4=h0b41bf4_2
- xorg-libxfixes=5.0.3=h7f98852_1004
- xorg-libxi=1.7.10=h7f98852_0
- xorg-libxrender=0.9.11=hd590300_0
- xorg-libxtst=1.2.3=h7f98852_1002
- xorg-recordproto=1.14.2=h7f98852_1002
- xorg-renderproto=0.11.1=h7f98852_1002
- xorg-xextproto=7.3.0=h0b41bf4_1003
- xorg-xproto=7.0.31=h7f98852_1007
- xz=5.2.10=h5eee18b_1
- yaml=0.2.5=h7f98852_2
- yarl=1.8.1=py37h5eee18b_0
- zipp=3.11.0=py37h06a4308_0
- zlib=1.2.13=hd590300_5
- zstd=1.5.2=hfc55251_7
- pip:
- checkm2==1.0.1
- lightgbm==4.1.0
- packaging==23.1
- scikit-learn==0.23.2
- tensorflow-estimator==2.3.0
- threadpoolctl==3.1.0
- idna==3.4
- charset-normalizer==3.2.0
- requests==2.31.0
- tqdm==4.65.0
- urllib3==2.0.4