-
Notifications
You must be signed in to change notification settings - Fork 3
/
Copy pathteraseq-env.yml
405 lines (405 loc) · 13.3 KB
/
teraseq-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
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
name: teraseq
channels:
- defaults
- bioconda
- r
- conda-forge
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=1_gnu
- _r-mutex=1.0.1=anacondar_1
- alsa-lib=1.2.3=h516909a_0
- bbmap=38.67=h516909a_0
- bedops=2.4.39=hc9558a2_0
- bedtools=2.29.0=hc088bd4_3
- binutils_impl_linux-64=2.34=h53a641e_7
- binutils_linux-64=2.34=hc952b39_18
- bioconductor-annotate=1.60.1=r351_0
- bioconductor-annotationdbi=1.44.0=r351_0
- bioconductor-annotationfilter=1.6.0=r351_0
- bioconductor-biobase=2.42.0=r351h14c3975_1
- bioconductor-biocgenerics=0.28.0=r351_1
- bioconductor-biocparallel=1.16.6=r351h1c2f66e_0
- bioconductor-biomart=2.38.0=r351_0
- bioconductor-biostrings=2.50.2=r351h14c3975_0
- bioconductor-biovizbase=1.30.1=r351h14c3975_0
- bioconductor-bsgenome=1.50.0=r351_0
- bioconductor-delayedarray=0.8.0=r351h14c3975_0
- bioconductor-deseq2=1.22.1=r351hf484d3e_0
- bioconductor-dupradar=1.14.0=r351_0
- bioconductor-ensembldb=2.6.3=r351_0
- bioconductor-genefilter=1.64.0=r351h1c2f66e_1
- bioconductor-geneplotter=1.60.0=r351_0
- bioconductor-genomeinfodb=1.18.1=r351_0
- bioconductor-genomeinfodbdata=1.2.1=r351_0
- bioconductor-genomicalignments=1.18.1=r351h14c3975_0
- bioconductor-genomicfeatures=1.34.1=r351_0
- bioconductor-genomicranges=1.34.0=r351h14c3975_0
- bioconductor-gviz=1.26.4=r351_0
- bioconductor-iranges=2.16.0=r351h14c3975_0
- bioconductor-protgenerics=1.14.0=r351_0
- bioconductor-rsamtools=1.34.0=r351hf484d3e_0
- bioconductor-rsubread=1.34.0=r351h14c3975_0
- bioconductor-rtracklayer=1.42.1=r351h9d9f1b6_1
- bioconductor-s4vectors=0.20.1=r351h14c3975_0
- bioconductor-summarizedexperiment=1.12.0=r351_0
- bioconductor-tximport=1.12.1=r351_1
- bioconductor-variantannotation=1.28.3=r351h14c3975_0
- bioconductor-xvector=0.22.0=r351h14c3975_0
- bioconductor-zlibbioc=1.28.0=r351h14c3975_0
- bwidget=1.9.14=0
- bx-python=0.8.9=py37h73d7ac5_2
- bzip2=1.0.8=h7b6447c_0
- c-ares=1.16.1=h516909a_3
- ca-certificates=2020.11.8=ha878542_0
- cairo=1.16.0=h18b612c_1001
- cd-hit=4.8.1=h8b12597_3
- certifi=2020.11.8=py37h89c1867_0
- curl=7.68.0=hf8cf82a_0
- cycler=0.10.0=py37_0
- cython=0.29.21=py37he6710b0_0
- expat=2.2.9=he6710b0_2
- fastqc=0.11.9=0
- fastx_toolkit=0.0.14=2
- font-ttf-dejavu-sans-mono=2.37=h6964260_0
- fontconfig=2.13.1=he4413a7_1000
- freetype=2.10.2=h5ab3b9f_0
- fribidi=1.0.10=h7b6447c_0
- future=0.18.2=py37_1
- gcc_impl_linux-64=7.3.0=habb00fd_1
- gcc_linux-64=7.3.0=h553295d_18
- gffread=0.12.1=h8b12597_0
- gfortran_impl_linux-64=7.3.0=hdf63c60_1
- gfortran_linux-64=7.3.0=h553295d_18
- giflib=5.2.1=h516909a_2
- glib=2.65.0=h3eb4bd4_0
- gmap=2019.09.12=pl526h2f06484_1
- gmp=6.2.0=he1b5a44_2
- gnuplot=5.0.3=4
- graphite2=1.3.14=h23475e2_0
- gsl=2.5=h294904e_1
- gxx_impl_linux-64=7.3.0=hdf63c60_1
- gxx_linux-64=7.3.0=h553295d_18
- harfbuzz=2.4.0=hca77d97_1
- hdf5=1.10.5=nompi_h3c11f04_1104
- htslib=1.10.2=h78d89cc_0
- icu=58.2=he6710b0_3
- jpeg=9d=h516909a_0
- k8=0.2.5=he513fc3_0
- kiwisolver=1.2.0=py37hfd86e86_0
- krb5=1.16.4=h173b8e3_0
- lcms2=2.11=h396b838_0
- ld_impl_linux-64=2.34=h53a641e_7
- ldc=1.20.0=h9a1ace1_1
- libblas=3.8.0=17_openblas
- libcblas=3.8.0=17_openblas
- libcurl=7.68.0=hda55be3_0
- libdeflate=1.3=h516909a_0
- libedit=3.1.20191231=h14c3975_1
- libev=4.33=h7b6447c_0
- libffi=3.3=he6710b0_2
- libgcc=7.2.0=h69d50b8_2
- libgcc-ng=9.3.0=h24d8f2e_16
- libgd=2.2.5=h0db58fd_3
- libgfortran-ng=7.5.0=hdf63c60_16
- libgomp=9.3.0=h24d8f2e_16
- libgtextutils=0.7=he1b5a44_6
- libiconv=1.16=h516909a_0
- liblapack=3.8.0=17_openblas
- libnghttp2=1.41.0=h8cfc5f6_2
- libopenblas=0.3.10=h5a2b251_0
- libpng=1.6.37=hbc83047_0
- libssh2=1.9.0=h1ba5d50_1
- libstdcxx-ng=9.3.0=hdf63c60_16
- libtiff=4.1.0=h2733197_1
- libuuid=2.32.1=h14c3975_1000
- libwebp=1.0.2=h56121f0_5
- libxcb=1.14=h7b6447c_0
- libxml2=2.9.10=he19cac6_1
- llvm-openmp=8.0.1=hc9558a2_0
- lz4-c=1.9.2=he6710b0_1
- lzo=2.10=h7b6447c_2
- make=4.3=h516909a_0
- matplotlib-base=3.3.1=py37h817c723_0
- minimap2=2.17=hed695b0_3
- mysql-connector-c=6.1.11=h597af5e_1
- ncurses=6.2=he6710b0_1
- nose=1.3.7=py37_1004
- numpy=1.19.1=py37h7ea13bd_2
- olefile=0.46=py37_0
- openjdk=11.0.8=hacce0ff_0
- openmp=8.0.1=0
- openssl=1.1.1h=h7b6447c_0
- pandas=1.1.2=py37h3340039_0
- pango=1.40.14=he7ab937_1005
- parallel=20200922=0
- pcre=8.44=he6710b0_0
- perl=5.26.2=h14c3975_0
- perl-app-cpanminus=1.7044=pl526_1
- perl-carp=1.38=pl526_3
- perl-constant=1.33=pl526_1
- perl-cpan-meta=2.150010=pl526_0
- perl-cpan-meta-requirements=2.140=pl526_0
- perl-cpan-meta-yaml=0.018=pl526_0
- perl-cpan-shell=5.5004=pl526_1
- perl-data-dumper=2.173=pl526_0
- perl-encode=2.88=pl526_1
- perl-exporter=5.72=pl526_1
- perl-extutils-cbuilder=0.280230=pl526_1
- perl-extutils-makemaker=7.36=pl526_1
- perl-extutils-manifest=1.72=pl526_0
- perl-extutils-parsexs=3.35=pl526_0
- perl-file-path=2.16=pl526_0
- perl-file-temp=0.2304=pl526_2
- perl-getopt-long=2.50=pl526_1
- perl-ipc-cmd=1.02=pl526_0
- perl-json-pp=4.04=pl526_0
- perl-local-lib=2.000024=pl526_0
- perl-locale-maketext-simple=0.21=pl526_2
- perl-module-build=0.4224=pl526_3
- perl-module-corelist=5.20190524=pl526_0
- perl-module-load=0.32=pl526_1
- perl-module-load-conditional=0.68=pl526_2
- perl-module-metadata=1.000036=pl526_0
- perl-params-check=0.38=pl526_1
- perl-parent=0.236=pl526_1
- perl-perl-ostype=1.010=pl526_1
- perl-scalar-list-utils=1.52=pl526h516909a_0
- perl-text-abbrev=1.02=pl526_0
- perl-text-parsewords=3.30=pl526_0
- perl-version=0.9924=pl526_0
- picard=2.20.8=0
- pigz=2.4=h84994c4_0
- pillow=7.2.0=py37hb39fc2d_0
- pip=20.2.3=py_0
- pixman=0.38.0=h7b6447c_0
- pybigwig=0.3.17=py37hc013797_0
- pybktree=1.1=pyh9f0ad1d_0
- pyparsing=2.4.7=py_0
- pysam=0.15.3=py37hbcae180_3
- python=3.7.9=h7579374_0
- python-dateutil=2.8.1=py_0
- python-lzo=1.12=py37h81344f2_1001
- python_abi=3.7=1_cp37m
- pytz=2020.1=py_0
- qualimap=2.2.2a=1
- r=3.5.1=r351_0
- r-acepack=1.4.1=r351ha65eedd_0
- r-askpass=1.1=r35hcdcec82_1
- r-assertthat=0.2.1=r35h6115d3f_1
- r-backports=1.1.6=r35hcdcec82_1
- r-base=3.5.1=h08e1455_1008
- r-base64enc=0.1_3=r351h96ca727_4
- r-bh=1.72.0_3=r35h6115d3f_0
- r-bit=1.1_15.2=r35hcdcec82_0
- r-bit64=0.9_7=r351hd10c6a6_0
- r-bitops=1.0_6=r351h96ca727_4
- r-blob=1.2.1=r35h6115d3f_0
- r-boot=1.3_25=r35h6115d3f_0
- r-brew=1.0_6=r351h6115d3f_4
- r-callr=3.4.3=r35h6115d3f_0
- r-cellranger=1.1.0=r351h6115d3f_0
- r-checkmate=2.0.0=r35hcdcec82_0
- r-class=7.3_17=r35hcdcec82_0
- r-cli=2.0.2=r35h6115d3f_0
- r-clipr=0.7.0=r35h6115d3f_0
- r-cluster=2.1.0=r35h9bbef5b_2
- r-codetools=0.2_16=r35h6115d3f_1001
- r-colorspace=1.4_1=r35hcdcec82_1
- r-commonmark=1.7=r35hcdcec82_1001
- r-corrplot=0.84=r35_1002
- r-covr=3.5.0=r35h0357c0b_0
- r-cowplot=1.0.0=r35h6115d3f_1
- r-crayon=1.3.4=r351h6115d3f_0
- r-crosstalk=1.1.0.1=r35h6115d3f_0
- r-curl=4.3=r35hcdcec82_0
- r-data.table=1.12.8=r35hcdcec82_0
- r-dbi=1.1.0=r35h6115d3f_0
- r-desc=1.2.0=r351h6115d3f_0
- r-devtools=2.3.0=r35h6115d3f_0
- r-dichromat=2.0_0=r351h6115d3f_4
- r-digest=0.6.25=r35h0357c0b_1
- r-dplyr=0.8.5=r35h0357c0b_0
- r-dt=0.13=r35h6115d3f_0
- r-ellipsis=0.3.0=r35hcdcec82_0
- r-evaluate=0.14=r35h6115d3f_1
- r-extrafont=0.17=r35_1001
- r-extrafontdb=1.0=r35h6115d3f_1002
- r-fansi=0.4.1=r35hcdcec82_0
- r-farver=2.0.3=r35h0357c0b_0
- r-fastmap=1.0.1=r35h0357c0b_0
- r-forcats=0.5.0=r35h6115d3f_0
- r-foreign=0.8_76=r35hcdcec82_0
- r-formatr=1.7=r35h6115d3f_1
- r-formula=1.2_3=r351h6115d3f_0
- r-fs=1.4.1=r35h0357c0b_0
- r-futile.logger=1.4.3=r35h6115d3f_1002
- r-futile.options=1.0.1=r35h6115d3f_1001
- r-getopt=1.20.3=r35_1
- r-ggplot2=3.3.0=r35h6115d3f_0
- r-ggpubr=0.2.5=r35h6115d3f_0
- r-ggrepel=0.8.2=r35h0357c0b_0
- r-ggridges=0.5.2=r35h6115d3f_1
- r-ggsci=2.9=r35h6115d3f_1002
- r-ggsignif=0.6.0=r35h6115d3f_0
- r-gh=1.1.0=r35h6115d3f_0
- r-git2r=0.26.1=r35h7253d3a_1
- r-glue=1.4.0=r35hcdcec82_0
- r-gridbase=0.4_7=r351h6115d3f_4
- r-gridextra=2.3=r351h6115d3f_0
- r-gtable=0.3.0=r35h6115d3f_2
- r-haven=2.2.0=r35hde08347_0
- r-hdf5r=1.3.2=r35h3e93a20_0
- r-highr=0.8=r35h6115d3f_1
- r-hmisc=4.4_0=r35h9bbef5b_0
- r-hms=0.5.3=r35h6115d3f_0
- r-htmltable=1.13.3=r35h6115d3f_0
- r-htmltools=0.4.0=r35h0357c0b_0
- r-htmlwidgets=1.5.1=r35h6115d3f_0
- r-httpuv=1.5.2=r35h0357c0b_1
- r-httr=1.4.1=r35h6115d3f_1
- r-igraph=1.2.5=r35hd626d4e_0
- r-ini=0.3.1=r35h6115d3f_1002
- r-isoband=0.2.1=r35h0357c0b_0
- r-jsonlite=1.6.1=r35hcdcec82_0
- r-kernsmooth=2.23_17=r35hfa343cc_0
- r-knitr=1.28=r35h6115d3f_0
- r-labeling=0.3=r351h6115d3f_4
- r-lambda.r=1.2.4=r35h6115d3f_0
- r-later=1.0.0=r35h0357c0b_0
- r-lattice=0.20_41=r35hcdcec82_1
- r-latticeextra=0.6_28=r351h6115d3f_0
- r-lazyeval=0.2.2=r35hcdcec82_1
- r-lifecycle=0.2.0=r35h6115d3f_0
- r-locfit=1.5_9.4=r35hcdcec82_0
- r-magrittr=1.5=r351h6115d3f_4
- r-markdown=1.1=r35hcdcec82_0
- r-mass=7.3_51.6=r35hcdcec82_1
- r-matrix=1.2_18=r35h7fa42b6_2
- r-matrixstats=0.56.0=r35hcdcec82_0
- r-memoise=1.1.0=r351h6115d3f_0
- r-mgcv=1.8_31=r35h7fa42b6_0
- r-mime=0.9=r35hcdcec82_0
- r-munsell=0.5.0=r351h6115d3f_0
- r-nlme=3.1_147=r35h9bbef5b_0
- r-nnet=7.3_14=r35hcdcec82_0
- r-openssl=1.4.1=r35he5c4762_0
- r-openxlsx=4.1.4=r35h0357c0b_0
- r-optparse=1.6.2=r35h6115d3f_1
- r-patchwork=1.0.0=r35h6115d3f_0
- r-pillar=1.4.3=r35h6115d3f_0
- r-pkgbuild=1.0.7=r35h6115d3f_0
- r-pkgconfig=2.0.3=r35h6115d3f_0
- r-pkgload=1.0.2=r35h0357c0b_1001
- r-plogr=0.2.0=r351h6115d3f_0
- r-plyr=1.8.6=r35h0357c0b_0
- r-polynom=1.4_0=r35h6115d3f_1
- r-praise=1.0.0=r351h6115d3f_4
- r-prettyunits=1.1.1=r35h6115d3f_0
- r-processx=3.4.2=r35hcdcec82_0
- r-progress=1.2.2=r35h6115d3f_1
- r-promises=1.1.0=r35h0357c0b_0
- r-ps=1.3.2=r35hcdcec82_0
- r-purrr=0.3.4=r35hcdcec82_0
- r-r.methodss3=1.8.0=r35h6115d3f_0
- r-r.oo=1.23.0=r35h6115d3f_0
- r-r.utils=2.9.2=r35h6115d3f_0
- r-r6=2.4.1=r35h6115d3f_0
- r-rcmdcheck=1.3.3=r35h6115d3f_2
- r-rcolorbrewer=1.1_2=r351h6115d3f_0
- r-rcpp=1.0.4.6=r35h0357c0b_0
- r-rcpparmadillo=0.9.870.2.0=r35h51c796c_0
- r-rcurl=1.98_1.2=r35hcdcec82_0
- r-readr=1.3.1=r35h0357c0b_1002
- r-readxl=1.3.1=r35hde08347_3
- r-recommended=3.5.1=r35_1003
- r-rematch=1.0.1=r351h6115d3f_0
- r-rematch2=2.1.2=r35h6115d3f_0
- r-remotes=2.1.1=r35h6115d3f_0
- r-reshape2=1.4.4=r35h0357c0b_0
- r-rex=1.2.0=r35h6115d3f_0
- r-rio=0.5.16=r35h6115d3f_1001
- r-rlang=0.4.5=r35hcdcec82_2
- r-roxygen2=7.1.0=r35h0357c0b_0
- r-rpart=4.1_15=r35hcdcec82_1
- r-rprojroot=1.3_2=r351h6115d3f_0
- r-rsqlite=2.2.0=r35h0357c0b_0
- r-rstudioapi=0.11=r35h6115d3f_0
- r-rttf2pt1=1.3.8=r35hcdcec82_0
- r-rversions=2.0.1=r35h6115d3f_0
- r-scales=1.1.0=r35h6115d3f_0
- r-sessioninfo=1.1.1=r35h6115d3f_1001
- r-shiny=1.4.0.2=r35h6115d3f_0
- r-snow=0.4_3=r35h6115d3f_1001
- r-sourcetools=0.1.7=r351h29659fb_0
- r-spatial=7.3_12=r35hcdcec82_0
- r-stringi=1.4.3=r35h0357c0b_2
- r-stringr=1.4.0=r35h6115d3f_1
- r-survival=3.1_12=r35hcdcec82_0
- r-sys=3.3=r35hcdcec82_0
- r-testthat=2.3.2=r35h0357c0b_0
- r-tibble=3.0.1=r35hcdcec82_0
- r-tidyr=1.0.2=r35h0357c0b_0
- r-tidyselect=1.0.0=r35h6115d3f_0
- r-treemap=2.4_2=r35h6115d3f_1001
- r-usethis=1.6.1=r35h6115d3f_0
- r-utf8=1.1.4=r351h96ca727_0
- r-vctrs=0.2.4=r35hcdcec82_0
- r-venndiagram=1.6.20=r35h6115d3f_1001
- r-viridis=0.5.1=r351h6115d3f_0
- r-viridislite=0.3.0=r351h6115d3f_0
- r-whisker=0.4=r35h6115d3f_0
- r-withr=2.2.0=r35h6115d3f_0
- r-xfun=0.13=r35h6115d3f_0
- r-xml=3.99_0.3=r35hcdcec82_0
- r-xml2=1.3.2=r35h0357c0b_0
- r-xopen=1.0.0=r35h6115d3f_1002
- r-xtable=1.8_4=r35h6115d3f_2
- r-yaml=2.2.1=r35hcdcec82_0
- r-zeallot=0.1.0=r351h6115d3f_0
- r-zip=2.0.4=r35hcdcec82_0
- readline=8.0=h7b6447c_0
- regex=2020.7.14=py37h7b6447c_0
- rseqc=4.0.0=py37hf01694f_0
- sambamba=0.7.1=h984e79f_3
- samblaster=0.1.26=hc9558a2_0
- samtools=1.10=h2e538c0_3
- scipy=1.5.2=py37hb14ef9d_0
- seqkit=2.1.0=h9ee0642_0
- seqtk=1.3=hed695b0_2
- setuptools=49.6.0=py37_0
- six=1.15.0=py_0
- sqlite=3.33.0=h62c20be_0
- star=2.7.2b=0
- subread=2.0.0=hed695b0_0
- tk=8.6.10=hbc83047_0
- tktable=2.10=h14c3975_0
- tornado=6.0.4=py37h7b6447c_1
- trimmomatic=0.39=1
- ucsc-bedgraphtobigwig=377=h446ed27_1
- ucsc-bedtobigbed=377=h446ed27_1
- ucsc-bigbedtobed=377=h446ed27_1
- ucsc-genepredtobed=377=h446ed27_3
- ucsc-gtftogenepred=377=h446ed27_3
- ucsc-liftover=377=h446ed27_2
- umi_tools=1.1.0=py37hf01694f_0
- wheel=0.35.1=py_0
- xorg-fixesproto=5.0=h14c3975_1002
- xorg-inputproto=2.3.2=h14c3975_1002
- xorg-kbproto=1.0.7=h14c3975_1002
- xorg-libice=1.0.10=h516909a_0
- xorg-libsm=1.2.3=h84519dc_1000
- xorg-libx11=1.6.12=h516909a_0
- xorg-libxext=1.3.4=h516909a_0
- xorg-libxfixes=5.0.3=h516909a_1004
- xorg-libxi=1.7.10=h516909a_0
- xorg-libxrender=0.9.10=h516909a_1002
- xorg-libxtst=1.2.3=h516909a_1002
- xorg-recordproto=1.14.2=h516909a_1002
- xorg-renderproto=0.11.1=h14c3975_1002
- xorg-xextproto=7.3.0=h14c3975_1002
- xorg-xproto=7.0.31=h14c3975_1007
- xz=5.2.5=h7b6447c_0
- zlib=1.2.11=h7b6447c_3
- zstd=1.4.5=h9ceee32_0
prefix: /home/jan/tools/miniconda3/envs/teraseq