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rajewsky-lab / spacemake

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spacemake init --download_species return KeyError #31

Closed sinanugur closed 2 years ago

sinanugur commented 2 years ago

This is the conda list results:

# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       1_gnu    conda-forge
_r-mutex                  1.0.1               anacondar_1    conda-forge
aioeasywebdav             2.4.0           py39hf3d152e_1001    conda-forge
aiohttp                   3.8.1            py39h3811e60_0    conda-forge
aiosignal                 1.2.0              pyhd8ed1ab_0    conda-forge
alabaster                 0.7.12                   pypi_0    pypi
alsa-lib                  1.1.5             h516909a_1002    conda-forge
amply                     0.1.4                      py_0    conda-forge
anndata                   0.8.0                    pypi_0    pypi
appdirs                   1.4.4              pyh9f0ad1d_0    conda-forge
asciitree                 0.3.3                    pypi_0    pypi
async-timeout             4.0.2              pyhd8ed1ab_0    conda-forge
atk-1.0                   2.36.0               h3371d22_4    conda-forge
attmap                    0.13.2             pyhd8ed1ab_0    conda-forge
attrs                     21.4.0             pyhd8ed1ab_0    conda-forge
babel                     2.9.1                    pypi_0    pypi
backports                 1.0                        py_2    conda-forge
backports.functools_lru_cache 1.6.4              pyhd8ed1ab_0    conda-forge
bcl2fastq2                2.20.0.422                    2    bih-cubi
bcrypt                    3.2.0            py39h3811e60_2    conda-forge
binutils_impl_linux-64    2.36.1               h193b22a_2    conda-forge
binutils_linux-64         2.36                 hf3e587d_7    conda-forge
biopython                 1.79                     pypi_0    pypi
blas                      1.0                    openblas
boto3                     1.21.21            pyhd8ed1ab_0    conda-forge
botocore                  1.24.21            pyhd8ed1ab_0    conda-forge
bowtie2                   2.4.5            py39hd2f7db1_2    bioconda
brotli                    1.0.9                h7f98852_6    conda-forge
brotli-bin                1.0.9                h7f98852_6    conda-forge
brotlipy                  0.7.0           py39h3811e60_1003    conda-forge
bwidget                   1.9.14               ha770c72_1    conda-forge
bzip2                     1.0.8                h7f98852_4    conda-forge
c-ares                    1.18.1               h7f98852_0    conda-forge
ca-certificates           2022.2.1             h06a4308_0
cachetools                5.0.0              pyhd8ed1ab_0    conda-forge
cairo                     1.16.0            ha12eb4b_1010    conda-forge
certifi                   2021.10.8        py39h06a4308_2
cffi                      1.15.0           py39h4bc2ebd_0    conda-forge
charset-normalizer        2.0.12             pyhd8ed1ab_0    conda-forge
cloudpickle               2.0.0                    pypi_0    pypi
coin-or-cbc               2.10.7               h3786ebc_0    conda-forge
coin-or-cgl               0.60.3               he7e83c3_2    conda-forge
coin-or-clp               1.17.6               h256e9bb_3    conda-forge
coin-or-osi               0.108.6              h3b589db_2    conda-forge
coin-or-utils             2.11.6               h573740c_0    conda-forge
coincbc                   2.10.7            0_metapackage    conda-forge
commonmark                0.9.1                    pypi_0    pypi
configargparse            1.5.3              pyhd8ed1ab_0    conda-forge
cryptography              36.0.1           py39h95dcef6_0    conda-forge
curl                      7.82.0               h7bff187_0    conda-forge
cycler                    0.11.0             pyhd8ed1ab_0    conda-forge
dask                      2022.2.1                 pypi_0    pypi
dask-image                2021.12.0                pypi_0    pypi
datrie                    0.8.2            py39h3811e60_3    conda-forge
defusedxml                0.7.1              pyhd8ed1ab_0    conda-forge
docrep                    0.3.2                    pypi_0    pypi
docutils                  0.17.1                   pypi_0    pypi
dropbox                   11.28.0            pyhd8ed1ab_0    conda-forge
dropseq_tools             2.5.1                hdfd78af_0    bioconda
expat                     2.4.7                h27087fc_0    conda-forge
fasteners                 0.17.3                   pypi_0    pypi
fastqc                    0.11.9               hdfd78af_1    bioconda
fftw                      3.3.10          nompi_h77c792f_102    conda-forge
filechunkio               1.8                        py_2    conda-forge
filelock                  3.6.0              pyhd8ed1ab_0    conda-forge
font-ttf-dejavu-sans-mono 2.37                 hab24e00_0    conda-forge
font-ttf-inconsolata      3.000                h77eed37_0    conda-forge
font-ttf-source-code-pro  2.038                h77eed37_0    conda-forge
font-ttf-ubuntu           0.83                 hab24e00_0    conda-forge
fontconfig                2.13.96              h8e229c2_2    conda-forge
fonts-conda-ecosystem     1                             0    conda-forge
fonts-conda-forge         1                             0    conda-forge
fonttools                 4.30.0           py39hb9d737c_0    conda-forge
freetype                  2.10.4               h0708190_1    conda-forge
fribidi                   1.0.10               h36c2ea0_0    conda-forge
frozenlist                1.3.0            py39h3811e60_0    conda-forge
fsspec                    2022.2.0                 pypi_0    pypi
ftputil                   5.0.3              pyhd8ed1ab_0    conda-forge
gcc_impl_linux-64         9.4.0               h03d3576_14    conda-forge
gcc_linux-64              9.4.0                h391b98a_7    conda-forge
gdk-pixbuf                2.42.6               h04a7f16_0    conda-forge
gettext                   0.19.8.1          h73d1719_1008    conda-forge
gfortran_impl_linux-64    9.4.0               h0003116_14    conda-forge
gfortran_linux-64         9.4.0                hf0ab688_7    conda-forge
ghostscript               9.54.0               h27087fc_2    conda-forge
giflib                    5.2.1                h36c2ea0_2    conda-forge
gitdb                     4.0.9              pyhd8ed1ab_0    conda-forge
gitpython                 3.1.27             pyhd8ed1ab_0    conda-forge
google-api-core           2.5.0              pyhd8ed1ab_0    conda-forge
google-api-python-client  2.41.0             pyhd8ed1ab_0    conda-forge
google-auth               2.6.0              pyh6c4a22f_1    conda-forge
google-auth-httplib2      0.1.0              pyhd8ed1ab_0    conda-forge
google-cloud-core         2.2.2              pyh6c4a22f_0    conda-forge
google-cloud-storage      2.1.0              pyh6c4a22f_0    conda-forge
google-crc32c             1.1.2            py39hb81f231_2    conda-forge
google-resumable-media    2.1.0              pyh6c4a22f_0    conda-forge
googleapis-common-protos  1.55.0           py39hf3d152e_0    conda-forge
graphite2                 1.3.13            h58526e2_1001    conda-forge
graphviz                  2.50.0               h85b4f2f_1    conda-forge
grpcio                    1.44.0           py39hff7568b_0    conda-forge
gsl                       2.7                  he838d99_0    conda-forge
gtk2                      2.24.33              h539f30e_1    conda-forge
gts                       0.7.6                h64030ff_2    conda-forge
gxx_impl_linux-64         9.4.0               h03d3576_14    conda-forge
gxx_linux-64              9.4.0                h0316aca_7    conda-forge
h5py                      3.6.0                    pypi_0    pypi
harfbuzz                  3.4.0                hb4a5f5f_0    conda-forge
htslib                    1.15                 h9753748_0    bioconda
httplib2                  0.20.4             pyhd8ed1ab_0    conda-forge
icu                       69.1                 h9c3ff4c_0    conda-forge
idna                      3.3                pyhd8ed1ab_0    conda-forge
igraph                    0.9.9                    pypi_0    pypi
imageio                   2.16.1                   pypi_0    pypi
imagemagick               7.1.0_27        pl5321hae5efcc_0    conda-forge
imagesize                 1.3.0                    pypi_0    pypi
importlib-metadata        4.11.3           py39hf3d152e_0    conda-forge
importlib_resources       5.4.0              pyhd8ed1ab_0    conda-forge
inflect                   5.4.0                    pypi_0    pypi
iniconfig                 1.1.1              pyh9f0ad1d_0    conda-forge
java-jdk                  8.0.92                        1    bioconda
jbig                      2.1               h7f98852_2003    conda-forge
jinja2                    3.0.3              pyhd8ed1ab_0    conda-forge
jmespath                  1.0.0              pyhd8ed1ab_0    conda-forge
joblib                    1.1.0                    pypi_0    pypi
jpeg                      9e                   h7f98852_0    conda-forge
jsonschema                4.4.0              pyhd8ed1ab_0    conda-forge
jupyter_core              4.9.2            py39hf3d152e_0    conda-forge
kernel-headers_linux-64   2.6.32              he073ed8_15    conda-forge
keyutils                  1.6.1                h166bdaf_0    conda-forge
kiwisolver                1.4.0            py39hf939315_0    conda-forge
krb5                      1.19.3               h3790be6_0    conda-forge
lcms2                     2.12                 hddcbb42_0    conda-forge
ld_impl_linux-64          2.36.1               hea4e1c9_2    conda-forge
ldc                       1.28.1               hcf88599_0    conda-forge
leidenalg                 0.8.9                    pypi_0    pypi
lerc                      3.0                  h9c3ff4c_0    conda-forge
libblas                   3.9.0           13_linux64_openblas    conda-forge
libbrotlicommon           1.0.9                h7f98852_6    conda-forge
libbrotlidec              1.0.9                h7f98852_6    conda-forge
libbrotlienc              1.0.9                h7f98852_6    conda-forge
libcblas                  3.9.0           13_linux64_openblas    conda-forge
libcrc32c                 1.1.2                h9c3ff4c_0    conda-forge
libcurl                   7.82.0               h7bff187_0    conda-forge
libdeflate                1.10                 h7f98852_0    conda-forge
libedit                   3.1.20191231         he28a2e2_2    conda-forge
libev                     4.33                 h516909a_1    conda-forge
libffi                    3.4.2                h7f98852_5    conda-forge
libgcc                    7.2.0                h69d50b8_2    conda-forge
libgcc-devel_linux-64     9.4.0               hd854feb_14    conda-forge
libgcc-ng                 11.2.0              h1d223b6_14    conda-forge
libgd                     2.3.3                h283352f_2    conda-forge
libgfortran-ng            11.2.0              h69a702a_14    conda-forge
libgfortran5              11.2.0              h5c6108e_14    conda-forge
libglib                   2.70.2               h174f98d_4    conda-forge
libglu                    9.0.0             he1b5a44_1001    conda-forge
libgomp                   11.2.0              h1d223b6_14    conda-forge
libiconv                  1.16                 h516909a_0    conda-forge
liblapack                 3.9.0           13_linux64_openblas    conda-forge
liblapacke                3.9.0           13_linux64_openblas    conda-forge
libllvm12                 12.0.1               hf817b99_2    conda-forge
libnghttp2                1.47.0               h727a467_0    conda-forge
libnsl                    2.0.0                h7f98852_0    conda-forge
libopenblas               0.3.18          pthreads_h8fe5266_0    conda-forge
libpng                    1.6.37               h21135ba_2    conda-forge
libprotobuf               3.19.4               h780b84a_0    conda-forge
librsvg                   2.52.5               hc3c00ef_1    conda-forge
libsanitizer              9.4.0               h79bfe98_14    conda-forge
libsodium                 1.0.18               h36c2ea0_1    conda-forge
libssh2                   1.10.0               ha56f1ee_2    conda-forge
libstdcxx-devel_linux-64  9.4.0               hd854feb_14    conda-forge
libstdcxx-ng              11.2.0              he4da1e4_14    conda-forge
libtiff                   4.3.0                h542a066_3    conda-forge
libtool                   2.4.6             h9c3ff4c_1008    conda-forge
libuuid                   2.32.1            h7f98852_1000    conda-forge
libwebp                   1.2.2                h3452ae3_0    conda-forge
libwebp-base              1.2.2                h7f98852_1    conda-forge
libxcb                    1.13              h7f98852_1004    conda-forge
libxml2                   2.9.12               h885dcf4_1    conda-forge
libzlib                   1.2.11            h36c2ea0_1013    conda-forge
llvmlite                  0.38.0                   pypi_0    pypi
locket                    0.2.1                    pypi_0    pypi
logmuse                   0.2.6              pyh8c360ce_0    conda-forge
lz4-c                     1.9.3                h9c3ff4c_1    conda-forge
make                      4.3                  hd18ef5c_1    conda-forge
markupsafe                2.1.1            py39hb9d737c_0    conda-forge
matplotlib-base           3.5.1            py39h2fa2bec_0    conda-forge
more-itertools            8.12.0                   pypi_0    pypi
multidict                 6.0.2            py39h3811e60_0    conda-forge
munkres                   1.1.4              pyh9f0ad1d_0    conda-forge
natsort                   8.1.0                    pypi_0    pypi
nbformat                  5.2.0              pyhd8ed1ab_0    conda-forge
ncurses                   6.3                  h9c3ff4c_0    conda-forge
networkx                  2.7.1              pyhd8ed1ab_0    conda-forge
novosparc                 0.4.3                    pypi_0    pypi
numba                     0.55.1                   pypi_0    pypi
numcodecs                 0.9.1                    pypi_0    pypi
numexpr                   2.8.1                    pypi_0    pypi
numpy                     1.21.5                   pypi_0    pypi
numpy-base                1.21.2           py39h2b8c604_0
oauth2client              4.1.3                      py_0    conda-forge
omnipath                  1.0.5                    pypi_0    pypi
openjdk                   11.0.1            h600c080_1018    conda-forge
openjpeg                  2.4.0                hb52868f_1    conda-forge
openssl                   1.1.1m               h7f8727e_0
packaging                 21.3               pyhd8ed1ab_0    conda-forge
pandas                    1.4.1            py39hde0f152_0    conda-forge
pandoc                    2.17.1.1             ha770c72_0    conda-forge
pango                     1.48.10              h54213e6_2    conda-forge
paramiko                  2.10.2             pyhd8ed1ab_0    conda-forge
partd                     1.2.0                    pypi_0    pypi
patsy                     0.5.2                    pypi_0    pypi
pcre                      8.45                 h9c3ff4c_0    conda-forge
pcre2                     10.37                h032f7d1_0    conda-forge
peppy                     0.31.2             pyhd8ed1ab_2    conda-forge
perl                      5.32.1          2_h7f98852_perl5    conda-forge
pillow                    9.0.1            py39hae2aec6_2    conda-forge
pims                      0.5                      pypi_0    pypi
pip                       22.0.4             pyhd8ed1ab_0    conda-forge
pixman                    0.40.0               h36c2ea0_0    conda-forge
pkg-config                0.29.2            h36c2ea0_1008    conda-forge
pluggy                    1.0.0            py39hf3d152e_2    conda-forge
ply                       3.11                       py_1    conda-forge
pot                       0.8.1.0          py39hde0f152_0    conda-forge
prettytable               3.2.0              pyhd8ed1ab_0    conda-forge
protobuf                  3.19.4           py39he80948d_0    conda-forge
psutil                    5.9.0            py39h3811e60_0    conda-forge
pthread-stubs             0.4               h36c2ea0_1001    conda-forge
pulp                      2.6.0            py39hf3d152e_0    conda-forge
py                        1.11.0             pyh6c4a22f_0    conda-forge
pyasn1                    0.4.8                      py_0    conda-forge
pyasn1-modules            0.2.7                      py_0    conda-forge
pycparser                 2.21               pyhd8ed1ab_0    conda-forge
pygments                  2.11.2             pyhd8ed1ab_0    conda-forge
pygraphviz                1.9              py39ha206bd0_0    conda-forge
pynacl                    1.5.0            py39h3811e60_0    conda-forge
pynndescent               0.5.6                    pypi_0    pypi
pyopenssl                 22.0.0             pyhd8ed1ab_0    conda-forge
pyparsing                 3.0.7              pyhd8ed1ab_0    conda-forge
pyrsistent                0.18.1           py39h3811e60_0    conda-forge
pysam                     0.18.0           py39h5030a8b_2    bioconda
pysftp                    0.2.9                      py_1    conda-forge
pysocks                   1.7.1            py39hf3d152e_4    conda-forge
pytest                    7.1.0            py39hf3d152e_0    conda-forge
python                    3.9.10          h85951f9_2_cpython    conda-forge
python-dateutil           2.8.2              pyhd8ed1ab_0    conda-forge
python-irodsclient        1.1.2              pyhd8ed1ab_0    conda-forge
python_abi                3.9                      2_cp39    conda-forge
pytz                      2021.3             pyhd8ed1ab_0    conda-forge
pyu2f                     0.1.5              pyhd8ed1ab_0    conda-forge
pywavelets                1.3.0                    pypi_0    pypi
pyyaml                    6.0              py39h3811e60_3    conda-forge
r-askpass                 1.1               r41hcfec24a_2    conda-forge
r-assertthat              0.2.1             r41hc72bb7e_2    conda-forge
r-backports               1.4.1             r41hcfec24a_0    conda-forge
r-base                    4.1.2                hde4fec0_0    conda-forge
r-base64enc               0.1_3           r41hcfec24a_1004    conda-forge
r-bit                     4.0.4             r41hcfec24a_0    conda-forge
r-bit64                   4.0.5             r41hcfec24a_0    conda-forge
r-blob                    1.2.2             r41hc72bb7e_0    conda-forge
r-brio                    1.1.3             r41hcfec24a_0    conda-forge
r-broom                   0.7.12            r41hc72bb7e_0    conda-forge
r-bslib                   0.3.1             r41hc72bb7e_0    conda-forge
r-cachem                  1.0.6             r41hcfec24a_0    conda-forge
r-callr                   3.7.0             r41hc72bb7e_0    conda-forge
r-cellranger              1.1.0           r41hc72bb7e_1004    conda-forge
r-cli                     3.2.0             r41h03ef668_0    conda-forge
r-clipr                   0.8.0             r41hc72bb7e_0    conda-forge
r-codetools               0.2_18            r41hc72bb7e_0    conda-forge
r-colorspace              2.0_3             r41h06615bd_0    conda-forge
r-commonmark              1.8.0             r41h06615bd_0    conda-forge
r-cowplot                 1.1.1             r41hc72bb7e_0    conda-forge
r-cpp11                   0.4.2             r41hc72bb7e_0    conda-forge
r-crayon                  1.5.0             r41hc72bb7e_0    conda-forge
r-crosstalk               1.2.0             r41hc72bb7e_0    conda-forge
r-curl                    4.3.2             r41hcfec24a_0    conda-forge
r-data.table              1.14.2            r41hcfec24a_0    conda-forge
r-dbi                     1.1.2             r41hc72bb7e_0    conda-forge
r-dbplyr                  2.1.1             r41hc72bb7e_0    conda-forge
r-desc                    1.4.0             r41hc72bb7e_0    conda-forge
r-dichromat               2.0_0           r41ha770c72_2002    conda-forge
r-diffobj                 0.3.5             r41hcfec24a_0    conda-forge
r-digest                  0.6.29            r41h03ef668_0    conda-forge
r-dplyr                   1.0.7             r41h03ef668_0    conda-forge
r-dtplyr                  1.2.1             r41hc72bb7e_0    conda-forge
r-ellipsis                0.3.2             r41hcfec24a_0    conda-forge
r-evaluate                0.15              r41hc72bb7e_0    conda-forge
r-fansi                   1.0.2             r41hcfec24a_0    conda-forge
r-farver                  2.1.0             r41h03ef668_0    conda-forge
r-fastmap                 1.1.0             r41h03ef668_0    conda-forge
r-fontawesome             0.2.2             r41hc72bb7e_0    conda-forge
r-forcats                 0.5.1             r41hc72bb7e_0    conda-forge
r-fs                      1.5.2             r41h03ef668_0    conda-forge
r-gargle                  1.2.0             r41hc72bb7e_0    conda-forge
r-gdtools                 0.2.4             r41h42e24d8_0    conda-forge
r-generics                0.1.2             r41hc72bb7e_0    conda-forge
r-ggplot2                 3.3.5             r41hc72bb7e_0    conda-forge
r-glue                    1.6.2             r41h06615bd_0    conda-forge
r-googledrive             2.0.0             r41hc72bb7e_0    conda-forge
r-googlesheets4           1.0.0             r41h785f33e_0    conda-forge
r-gtable                  0.3.0             r41hc72bb7e_3    conda-forge
r-haven                   2.4.3             r41h2713e49_0    conda-forge
r-hexbin                  1.28.2            r41h8da6f51_0    conda-forge
r-highr                   0.9               r41hc72bb7e_0    conda-forge
r-hms                     1.1.1             r41hc72bb7e_0    conda-forge
r-htmltools               0.5.2             r41h03ef668_0    conda-forge
r-htmlwidgets             1.5.4             r41hc72bb7e_0    conda-forge
r-httpuv                  1.6.5             r41h03ef668_0    conda-forge
r-httr                    1.4.2             r41hc72bb7e_0    conda-forge
r-ids                     1.0.1             r41hc72bb7e_1    conda-forge
r-isoband                 0.2.5             r41h03ef668_0    conda-forge
r-jquerylib               0.1.4             r41hc72bb7e_0    conda-forge
r-jsonlite                1.8.0             r41h06615bd_0    conda-forge
r-kableextra              1.3.4             r41hc72bb7e_0    conda-forge
r-knitr                   1.37              r41hc72bb7e_1    conda-forge
r-labeling                0.4.2             r41hc72bb7e_1    conda-forge
r-later                   1.2.0             r41h03ef668_0    conda-forge
r-lattice                 0.20_45           r41hcfec24a_0    conda-forge
r-lazyeval                0.2.2             r41hcfec24a_2    conda-forge
r-lifecycle               1.0.1             r41hc72bb7e_0    conda-forge
r-lubridate               1.8.0             r41h03ef668_0    conda-forge
r-magrittr                2.0.2             r41hcfec24a_0    conda-forge
r-manipulatewidget        0.11.1            r41hc72bb7e_0    conda-forge
r-mapproj                 1.2.8             r41hcfec24a_0    conda-forge
r-maps                    3.4.0             r41hcfec24a_0    conda-forge
r-mass                    7.3_55            r41hcfec24a_0    conda-forge
r-matrix                  1.4_0             r41he454529_0    conda-forge
r-mgcv                    1.8_39            r41h0154571_0    conda-forge
r-mime                    0.12              r41hcfec24a_0    conda-forge
r-miniui                  0.1.1.1         r41hc72bb7e_1002    conda-forge
r-modelr                  0.1.8             r41hc72bb7e_0    conda-forge
r-munsell                 0.5.0           r41hc72bb7e_1004    conda-forge
r-nlme                    3.1_155           r41h859d828_0    conda-forge
r-openssl                 2.0.0             r41hfaab4ff_0    conda-forge
r-pals                    1.7               r41hc72bb7e_0    conda-forge
r-pillar                  1.7.0             r41hc72bb7e_0    conda-forge
r-pkgconfig               2.0.3             r41hc72bb7e_1    conda-forge
r-pkgload                 1.2.4             r41h03ef668_0    conda-forge
r-praise                  1.0.0           r41hc72bb7e_1005    conda-forge
r-prettyunits             1.1.1             r41hc72bb7e_1    conda-forge
r-processx                3.5.2             r41hcfec24a_0    conda-forge
r-progress                1.2.2             r41hc72bb7e_2    conda-forge
r-promises                1.2.0.1           r41h03ef668_0    conda-forge
r-ps                      1.6.0             r41hcfec24a_0    conda-forge
r-purrr                   0.3.4             r41hcfec24a_1    conda-forge
r-r6                      2.5.1             r41hc72bb7e_0    conda-forge
r-rappdirs                0.3.3             r41hcfec24a_0    conda-forge
r-rcolorbrewer            1.1_2           r41h785f33e_1003    conda-forge
r-rcpp                    1.0.8.2           r41h7525677_0    conda-forge
r-readr                   2.1.2             r41h03ef668_0    conda-forge
r-readxl                  1.3.1             r41h2713e49_4    conda-forge
r-rematch                 1.0.1           r41hc72bb7e_1004    conda-forge
r-rematch2                2.1.2             r41hc72bb7e_1    conda-forge
r-reprex                  2.0.1             r41hc72bb7e_0    conda-forge
r-rgl                     0.108.3           r41hbf98b08_0    conda-forge
r-rlang                   0.4.12            r41hcfec24a_0    conda-forge
r-rmarkdown               2.13              r41hc72bb7e_1    conda-forge
r-rprojroot               2.0.2             r41hc72bb7e_0    conda-forge
r-rstudioapi              0.13              r41hc72bb7e_0    conda-forge
r-rvest                   1.0.2             r41hc72bb7e_0    conda-forge
r-sass                    0.4.0             r41h03ef668_0    conda-forge
r-scales                  1.1.1             r41hc72bb7e_0    conda-forge
r-selectr                 0.4_2             r41hc72bb7e_1    conda-forge
r-shiny                   1.7.1             r41h785f33e_0    conda-forge
r-shinyjs                 2.1.0             r41hc72bb7e_0    conda-forge
r-sourcetools             0.1.7           r41h03ef668_1002    conda-forge
r-stringi                 1.7.6             r41h337692f_1    conda-forge
r-stringr                 1.4.0             r41hc72bb7e_2    conda-forge
r-svglite                 2.1.0             r41h03ef668_0    conda-forge
r-sys                     3.4               r41hcfec24a_0    conda-forge
r-systemfonts             1.0.4             r41hef9c87a_0    conda-forge
r-testthat                3.1.2             r41h03ef668_0    conda-forge
r-tibble                  3.1.6             r41hcfec24a_0    conda-forge
r-tidyr                   1.2.0             r41h03ef668_0    conda-forge
r-tidyselect              1.1.1             r41hc72bb7e_0    conda-forge
r-tidyverse               1.3.1             r41hc72bb7e_0    conda-forge
r-tinytex                 0.37              r41hc72bb7e_0    conda-forge
r-tzdb                    0.2.0             r41h03ef668_0    conda-forge
r-utf8                    1.2.2             r41hcfec24a_0    conda-forge
r-uuid                    1.0_4             r41h06615bd_0    conda-forge
r-vctrs                   0.3.8             r41hcfec24a_1    conda-forge
r-viridislite             0.4.0             r41hc72bb7e_0    conda-forge
r-vroom                   1.5.7             r41h03ef668_0    conda-forge
r-waldo                   0.3.1             r41hc72bb7e_0    conda-forge
r-webshot                 0.5.2             r41hc72bb7e_1    conda-forge
r-withr                   2.5.0             r41hc72bb7e_0    conda-forge
r-xfun                    0.30              r41h7525677_0    conda-forge
r-xml2                    1.3.3             r41h03ef668_0    conda-forge
r-xtable                  1.8_4             r41hc72bb7e_3    conda-forge
r-yaml                    2.3.5             r41h06615bd_0    conda-forge
ratelimiter               1.2.0                   py_1002    conda-forge
readline                  8.1                  h46c0cb4_0    conda-forge
recommonmark              0.7.1                    pypi_0    pypi
requests                  2.27.1             pyhd8ed1ab_0    conda-forge
rsa                       4.8                pyhd8ed1ab_0    conda-forge
s3transfer                0.5.2              pyhd8ed1ab_0    conda-forge
sambamba                  0.8.2                h98b6b92_2    bioconda
samtools                  1.15                 h1170115_1    bioconda
scanpy                    1.8.2                    pypi_0    pypi
scikit-image              0.19.2                   pypi_0    pypi
scikit-learn              1.0.2                    pypi_0    pypi
scikit-misc               0.1.4                    pypi_0    pypi
scipy                     1.8.0            py39hee8e79c_1    conda-forge
seaborn                   0.11.2                   pypi_0    pypi
sed                       4.8                  he412f7d_0    conda-forge
setuptools                60.10.0          py39hf3d152e_0    conda-forge
sinfo                     0.3.4                    pypi_0    pypi
six                       1.16.0             pyh6c4a22f_0    conda-forge
slacker                   0.14.0                     py_0    conda-forge
slicerator                1.0.0                    pypi_0    pypi
smart_open                5.2.1              pyhd8ed1ab_0    conda-forge
smmap                     3.0.5              pyh44b312d_0    conda-forge
snakemake                 6.3.0                hdfd78af_0    bioconda
snakemake-minimal         6.3.0              pyhdfd78af_0    bioconda
snowballstemmer           2.2.0                    pypi_0    pypi
spacemake                 0.4.3                    pypi_0    pypi
sphinx                    4.4.0                    pypi_0    pypi
sphinxcontrib-applehelp   1.0.2                    pypi_0    pypi
sphinxcontrib-devhelp     1.0.2                    pypi_0    pypi
sphinxcontrib-htmlhelp    2.0.0                    pypi_0    pypi
sphinxcontrib-jsmath      1.0.1                    pypi_0    pypi
sphinxcontrib-qthelp      1.0.3                    pypi_0    pypi
sphinxcontrib-serializinghtml 1.1.5                    pypi_0    pypi
sqlite                    3.37.1               h4ff8645_0    conda-forge
squidpy                   1.1.2                    pypi_0    pypi
star                      2.7.10a              h9ee0642_0    bioconda
statsmodels               0.13.2                   pypi_0    pypi
stdlib-list               0.8.0                    pypi_0    pypi
stone                     3.3.1              pyhd8ed1ab_0    conda-forge
stopit                    1.1.2                      py_0    conda-forge
sysroot_linux-64          2.12                he073ed8_15    conda-forge
tables                    3.7.0                    pypi_0    pypi
tbb                       2020.2               h4bd325d_4    conda-forge
texttable                 1.6.4                    pypi_0    pypi
threadpoolctl             3.1.0                    pypi_0    pypi
tifffile                  2022.3.16                pypi_0    pypi
tk                        8.6.12               h27826a3_0    conda-forge
tktable                   2.10                 hb7b940f_3    conda-forge
tomli                     2.0.1              pyhd8ed1ab_0    conda-forge
toolz                     0.11.2                   pypi_0    pypi
toposort                  1.7                pyhd8ed1ab_0    conda-forge
tqdm                      4.63.0                   pypi_0    pypi
traitlets                 5.1.1              pyhd8ed1ab_0    conda-forge
typing-extensions         4.1.1                hd8ed1ab_0    conda-forge
typing_extensions         4.1.1              pyha770c72_0    conda-forge
tzdata                    2022a                h191b570_0    conda-forge
ubiquerg                  0.6.1              pyh9f0ad1d_0    conda-forge
umap-learn                0.5.2                    pypi_0    pypi
unicodedata2              14.0.0           py39h3811e60_0    conda-forge
uritemplate               4.1.1              pyhd8ed1ab_0    conda-forge
urllib3                   1.26.9             pyhd8ed1ab_0    conda-forge
veracitools               0.1.3                      py_0    conda-forge
wcwidth                   0.2.5              pyh9f0ad1d_2    conda-forge
wheel                     0.37.1             pyhd8ed1ab_0    conda-forge
wrapt                     1.14.0           py39hb9d737c_0    conda-forge
xarray                    2022.3.0                 pypi_0    pypi
xorg-fixesproto           5.0               h7f98852_1002    conda-forge
xorg-inputproto           2.3.2             h7f98852_1002    conda-forge
xorg-kbproto              1.0.7             h7f98852_1002    conda-forge
xorg-libice               1.0.10               h7f98852_0    conda-forge
xorg-libsm                1.2.3             hd9c2040_1000    conda-forge
xorg-libx11               1.7.2                h7f98852_0    conda-forge
xorg-libxau               1.0.9                h7f98852_0    conda-forge
xorg-libxdmcp             1.1.3                h7f98852_0    conda-forge
xorg-libxext              1.3.4                h7f98852_1    conda-forge
xorg-libxfixes            5.0.3             h7f98852_1004    conda-forge
xorg-libxi                1.7.10               h7f98852_0    conda-forge
xorg-libxrender           0.9.10            h7f98852_1003    conda-forge
xorg-libxt                1.2.1                h7f98852_2    conda-forge
xorg-libxtst              1.2.3             h7f98852_1002    conda-forge
xorg-recordproto          1.14.2            h7f98852_1002    conda-forge
xorg-renderproto          0.11.1            h7f98852_1002    conda-forge
xorg-xextproto            7.3.0             h7f98852_1002    conda-forge
xorg-xproto               7.0.31            h7f98852_1007    conda-forge
xz                        5.2.5                h516909a_1    conda-forge
yaml                      0.2.5                h7f98852_2    conda-forge
yarl                      1.7.2            py39h3811e60_1    conda-forge
zarr                      2.11.1                   pypi_0    pypi
zipp                      3.7.0              pyhd8ed1ab_1    conda-forge
zlib                      1.2.11            h36c2ea0_1013    conda-forge
zstd                      1.5.2                ha95c52a_0    conda-forge
sinanugur commented 2 years ago

I run spacemake init like

spacemake init --dropseq_tools Drop-seq_tools-2.5.1 --download_species

sztankatt commented 2 years ago

Dear @sinanugur ,

Thanks a lot for your interest in spacemake! I have fixed this issue, should be fine now.

Also realized now that on pypi we had an older version of spacemake, namely 0.4.3. I have uploaded now 0.5.1 so if you type pip install spacemake --upgrade it should install the latest version.

Let me know if you encounter any other errors.

Best, Tamas

sinanugur commented 2 years ago

Thanks @sztankatt

Sinan