BAD REQUEST - 'NoneType' object is not iterable

Hi eveyone,
I am trying to learn qiime2 studio using Moving Pictures Tutorials data.
I am using q2cl tutorial on moving pictures as my reference for doing step by step analysis in qiime2 studio.
I am was trying to produce a Alpha Rarefield Curve using entries and raw data files mentioned below.
However I am getting error "BAD REQUEST - 'NoneType' object is not iterable".
Do you have an idea what could be the problem? Please help me since I am new to qiime2.

Studio inputs
Input Artifact:
Input Artifact: phylogeny
Rooted tree
Input Parameter: max_depth
Input Parameter: metrics
Input Parameter:
Input Parameter: min_depth
Input Parameter: steps
Input Parameter: iterations
Output Name: visualization
Alpha rarefaction curves

Raw files used
sudhirtable.qza (50.8 KB)
Rooted tree.qza (61.4 KB)

Thank you

Hi @Sky23!

Thank you for the details.

I just tried the same action in the tutorial with the latest release, and I was unable to reproduce with your settings as described.

Would you be able to provide the version of QIIME 2 you are using via:

qiime info

Also, what version of node are you using:

node --version

and perhaps a screenshot of the error? Does the terminal hosting q2studio have anything in particular to say as well? Usually we'll get an error which doesn't look like the normal request logs (as shown below):

And, I suppose just to be safe, what does:

conda list

have to say?


P.S. q2studio is perhaps one of the rougher interfaces to actually use right now, for more typical use, I would still recommend using the CLI as it's a bit more predictable, and handles errors much better.

Hi ebolyen,
Thank you for the reply.
I am using qiime2 studio for the analysis. Studio is more easier than q2cli for me since I am not very familiar with the commands. I will really appreciate if you can help me. Is there any documentation for studio?
Please find the qiime info, node version and conda list below:
Python version: 3.6.7
QIIME 2 release: 2019.1
QIIME 2 version: 2019.1.0
q2cli version: 2019.1.0

Installed plugins
alignment: 2019.1.0
composition: 2019.1.0
cutadapt: 2019.1.0
dada2: 2019.1.0
deblur: 2019.1.0
demux: 2019.1.0
diversity: 2019.1.0
emperor: 2019.1.0
feature-classifier: 2019.1.0
feature-table: 2019.1.0
fragment-insertion: 2019.1.0
gneiss: 2019.1.0
longitudinal: 2019.1.0
metadata: 2019.1.0
phylogeny: 2019.1.0
quality-control: 2019.1.0
quality-filter: 2019.1.0
sample-classifier: 2019.1.0
taxa: 2019.1.0
types: 2019.1.0
vsearch: 2019.1.0

node --version

conda list

# packages in environment at /home/qiime2/miniconda/envs/qiime2-2019.1:
# Name                    Version                   Build  Channel
_r-mutex                  1.0.0               anacondar_1  
arb-bio-tools             6.0.6                h5901010_6    bioconda
asn1crypto                0.24.0                py36_1003    conda-forge
atk                       2.25.90           hf2eb9ee_1001    conda-forge
atomicwrites              1.2.1                      py_0    conda-forge
attrs                     18.2.0                     py_0    conda-forge
backcall                  0.1.0                      py_0    conda-forge
bibtexparser              1.1.0                      py_0    conda-forge
bioconductor-biobase      2.38.0           r341h219a75b_1    bioconda
bioconductor-biocgenerics 0.24.0                   r341_1    bioconda
bioconductor-biocparallel 1.12.0           r341h219a75b_1    bioconda
bioconductor-biostrings   2.46.0                 r3.4.1_0    bioconda
bioconductor-dada2        1.6.0                  r3.4.1_0    bioconda
bioconductor-delayedarray 0.4.1                  r3.4.1_0    bioconda
bioconductor-genomeinfodb 1.14.0                 r3.4.1_0    bioconda
bioconductor-genomeinfodbdata 1.0.0                  r3.4.1_1    bioconda
bioconductor-genomicalignments 1.14.1                 r3.4.1_0    bioconda
bioconductor-genomicranges 1.30.3                 r3.4.1_0    bioconda
bioconductor-iranges      2.12.0                 r3.4.1_0    bioconda
bioconductor-rsamtools    1.30.0                 r3.4.1_0    bioconda
bioconductor-s4vectors    0.16.0                 r3.4.1_0    bioconda
bioconductor-shortread    1.36.0                 r3.4.1_0    bioconda
bioconductor-summarizedexperiment 1.8.0                  r3.4.1_0    bioconda
bioconductor-xvector      0.18.0                 r3.4.1_0    bioconda
bioconductor-zlibbioc     1.24.0                 r3.4.1_0    bioconda
biom-format               2.1.7           py36h3010b51_1002    conda-forge
blas                      1.0                         mkl    conda-forge
blast                     2.7.1                h4422958_6    bioconda
bleach                    3.1.0                      py_0    conda-forge
bokeh                     1.0.4                 py36_1000    conda-forge
boost                     1.67.0           py36h3e44d54_0    conda-forge
boost-cpp                 1.67.0               h3a22d5f_0    conda-forge
bz2file                   0.98                       py_0    conda-forge
bzip2                     1.0.6             h14c3975_1002    conda-forge
ca-certificates           2018.11.29           ha4d7672_0    conda-forge
cachecontrol              0.12.5                     py_0    conda-forge
cairo                     1.14.12           h80bd089_1005    conda-forge
certifi                   2018.11.29            py36_1000    conda-forge
cffi                      1.11.5          py36h9745a5d_1001    conda-forge
chardet                   3.0.4                 py36_1003    conda-forge
click                     7.0                        py_0    conda-forge
cryptography              2.3.1           py36hb7f436b_1000    conda-forge
curl                      7.61.0               h93b3f91_2    conda-forge
cutadapt                  1.18                     py36_0    bioconda
cycler                    0.10.0                     py_1    conda-forge
dbus                      1.13.0            h4e0c4b3_1000    conda-forge
deblur                    1.1.0                    py36_0    bioconda
decorator                 4.3.2                      py_0    conda-forge
emperor                   1.0.0beta18           py36_1001    conda-forge
entrypoints               0.3                   py36_1000    conda-forge
expat                     2.2.5             hf484d3e_1002    conda-forge
fastcluster               1.1.25          py36h637b7d7_1000    conda-forge
fasttree                  2.1.10                        0    bioconda
Flask                     1.0.2                     <pip>
fontconfig                2.13.1            h2176d3f_1000    conda-forge
freetype                  2.9.1             h94bbf69_1005    conda-forge
future                    0.17.1                py36_1000    conda-forge
gdk-pixbuf                2.36.12           h4f1c04b_1001    conda-forge
gettext                   h9745a5d_1001    conda-forge
gevent                    1.4.0                     <pip>
glib                      2.56.2            had28632_1001    conda-forge
gmp                       6.1.2             hf484d3e_1000    conda-forge
gneiss                    0.4.4                      py_0    bioconda
gnutls                    3.5.19               h2a4e5f8_1    conda-forge
gobject-introspection     1.56.1          py36h9e29830_1001    conda-forge
graphite2                 1.3.13            hf484d3e_1000    conda-forge
greenlet                  0.4.15                    <pip>
gsl                       2.2.1                h0c605f7_3  
gstreamer                 1.12.5            h0cc0488_1000    conda-forge
gtk2                      2.24.31           h5baeb44_1000    conda-forge
h5py                      2.9.0           nompi_py36hf008753_1102    conda-forge
harfbuzz                  1.9.0             he243708_1001    conda-forge
hdf5                      1.10.4          nompi_h11e915b_1105    conda-forge
hdmedians                 0.13            py36h3010b51_1000    conda-forge
icu                       58.2              hf484d3e_1000    conda-forge
idna                      2.8                   py36_1000    conda-forge
ijson                     2.3                        py_1    conda-forge
intel-openmp              2019.1                      144  
ipykernel                 5.1.0           py36h24bf2e0_1002    conda-forge
ipython                   7.2.0           py36h24bf2e0_1000    conda-forge
ipython_genutils          0.2.0                      py_1    conda-forge
ipywidgets                7.4.2                      py_0    conda-forge
iqtree                    1.6.9                he941832_0    bioconda
itsdangerous              1.1.0                     <pip>
jedi                      0.13.2                py36_1000    conda-forge
jinja2                    2.10                       py_1    conda-forge
jpeg                      9c                h14c3975_1001    conda-forge
jsonschema                3.0.0a3               py36_1000    conda-forge
jupyter_client            5.2.4                      py_1    conda-forge
jupyter_core              4.4.0                      py_0    conda-forge
kiwisolver                1.0.1           py36h6bb024c_1002    conda-forge
krb5                      1.14.6                        0    conda-forge
libarbdb                  6.0.6                h5901010_6    bioconda
libcurl                   7.61.1               heec0ca6_0  
libffi                    3.2.1             hf484d3e_1005    conda-forge
libgcc                    7.2.0                h69d50b8_2    conda-forge
libgcc-ng                 7.3.0                hdf63c60_0    conda-forge
libgfortran               3.0.0                         1    conda-forge
libgfortran-ng            7.2.0                hdf63c60_3    conda-forge
libiconv                  1.15              h14c3975_1004    conda-forge
libpng                    1.6.36            h84994c4_1000    conda-forge
libsodium                 1.0.16            h14c3975_1001    conda-forge
libssh2                   1.8.0             h1ad7b7a_1003    conda-forge
libstdcxx-ng              7.3.0                hdf63c60_0    conda-forge
libtiff                   4.0.10            h9022e91_1002    conda-forge
libuuid                   2.32.1            h14c3975_1000    conda-forge
libxcb                    1.13              h14c3975_1002    conda-forge
libxml2                   2.9.8             h143f9aa_1005    conda-forge
lockfile                  0.12.2                     py_1    conda-forge
mafft                     7.310                         1    bioconda
markupsafe                1.1.0           py36h14c3975_1000    conda-forge
matplotlib                3.0.2                 py36_1002    conda-forge
matplotlib-base           3.0.2           py36h167e16e_1002    conda-forge
mistune                   0.8.4           py36h14c3975_1000    conda-forge
mkl                       2019.1                      144  
mkl_fft                   1.0.10           py36h14c3975_1    conda-forge
mkl_random                1.0.2            py36h637b7d7_2    conda-forge
more-itertools            4.3.0                 py36_1000    conda-forge
msgpack-python            0.6.1            py36h6bb024c_0    conda-forge
natsort                   5.5.0                      py_0    conda-forge
nbconvert                 5.3.1                      py_1    conda-forge
nbformat                  4.4.0                      py_1    conda-forge
ncurses                   6.1               hf484d3e_1002    conda-forge
nettle                    3.3                           0    conda-forge
nose                      1.3.7                 py36_1002    conda-forge
notebook                  5.7.4                 py36_1000    conda-forge
numpy                     1.15.4           py36h7e9f1db_0  
numpy-base                1.15.4           py36hde5b4d6_0  
olefile                   0.46                       py_0    conda-forge
openjdk                   11.0.1            h14c3975_1014    conda-forge
openssl                   1.0.2p            h14c3975_1002    conda-forge
packaging                 19.0                       py_0    conda-forge
pandas                    0.23.4          py36h637b7d7_1000    conda-forge
pandoc                    2.5                           1    conda-forge
pandocfilters             1.4.2                      py_1    conda-forge
pango                     1.40.14           hf0c64fd_1003    conda-forge
parso                     0.3.2                      py_0    conda-forge
patsy                     0.5.1                      py_0    conda-forge
pcre                      8.41              hf484d3e_1003    conda-forge
perl                      5.26.2            h14c3975_1001    conda-forge
perl-archive-tar          2.32                    pl526_0    bioconda
perl-carp                 1.38                    pl526_1    bioconda
perl-compress-raw-bzip2   2.084           pl526hfc679d8_0    bioconda
perl-compress-raw-zlib    2.084           pl526h2d50403_0    bioconda
perl-exporter             5.72                    pl526_1    bioconda
perl-exporter-tiny        1.002001                pl526_0    bioconda
perl-extutils-makemaker   7.34                    pl526_3    bioconda
perl-io-compress          2.084           pl526hfc679d8_0    bioconda
perl-io-zlib              1.10                    pl526_2    bioconda
perl-list-moreutils       0.428                   pl526_1    bioconda
perl-list-moreutils-xs    0.428                   pl526_0    bioconda
perl-pathtools            3.73                 h470a237_2    bioconda
perl-scalar-list-utils    1.45            pl526h470a237_3    bioconda
perl-test-more            1.001002                pl526_1    bioconda
perl-xsloader             0.24                    pl526_0    bioconda
pexpect                   4.6.0                 py36_1000    conda-forge
pickleshare               0.7.5                 py36_1000    conda-forge
pigz                      2.3.4                         0    conda-forge
pillow                    5.4.1           py36h00a061d_1000    conda-forge
pip                       19.0.1                   py36_0    conda-forge
pixman                    0.34.0            h14c3975_1003    conda-forge
pluggy                    0.8.1                      py_0    conda-forge
prometheus_client         0.5.0                      py_0    conda-forge
prompt_toolkit            2.0.8                      py_0    conda-forge
psutil                    5.4.8           py36h14c3975_1000    conda-forge
pthread-stubs             0.4               h14c3975_1001    conda-forge
ptyprocess                0.6.0                 py36_1000    conda-forge
py                        1.7.0                      py_0    conda-forge
pycparser                 2.19                       py_0    conda-forge
pygments                  2.3.1                      py_0    conda-forge
pyopenssl                 18.0.0                py36_1000    conda-forge
pyparsing                 2.3.0                      py_0    conda-forge
pyqt                      5.6.0           py36h13b7fb3_1008    conda-forge
pyrsistent                0.14.9          py36h14c3975_1000    conda-forge
pysocks                   1.6.8                 py36_1002    conda-forge
pytest                    4.1.1                 py36_1000    conda-forge
python                    3.6.7             hd21baee_1001    conda-forge
python-dateutil           2.7.5                      py_0    conda-forge
pytz                      2018.9                     py_0    conda-forge
pyyaml                    3.13            py36h14c3975_1001    conda-forge
pyzmq                     17.1.2          py36h6afc9c9_1001    conda-forge
q2-alignment              2019.1.0                 py36_0    qiime2/label/r2019.1
q2-composition            2019.1.0                 py36_0    qiime2/label/r2019.1
q2-cutadapt               2019.1.0                 py36_0    qiime2/label/r2019.1
q2-dada2                  2019.1.0                 py36_0    qiime2/label/r2019.1
q2-deblur                 2019.1.0                 py36_0    qiime2/label/r2019.1
q2-demux                  2019.1.0                 py36_0    qiime2/label/r2019.1
q2-diversity              2019.1.0                 py36_0    qiime2/label/r2019.1
q2-emperor                2019.1.0                 py36_0    qiime2/label/r2019.1
q2-feature-classifier     2019.1.0                 py36_0    qiime2/label/r2019.1
q2-feature-table          2019.1.0                 py36_0    qiime2/label/r2019.1
q2-fragment-insertion     2019.1.0                 py36_0    qiime2/label/r2019.1
q2-gneiss                 2019.1.0                 py36_0    qiime2/label/r2019.1
q2-longitudinal           2019.1.0                 py36_0    qiime2/label/r2019.1
q2-metadata               2019.1.0                 py36_0    qiime2/label/r2019.1
q2-phylogeny              2019.1.0                 py36_0    qiime2/label/r2019.1
q2-quality-control        2019.1.0                 py36_0    qiime2/label/r2019.1
q2-quality-filter         2019.1.0                 py36_0    qiime2/label/r2019.1
q2-sample-classifier      2019.1.0                 py36_0    qiime2/label/r2019.1
q2-taxa                   2019.1.0                 py36_0    qiime2/label/r2019.1
q2-types                  2019.1.0                 py36_0    qiime2/label/r2019.1
q2-vsearch                2019.1.0                 py36_0    qiime2/label/r2019.1
q2cli                     2019.1.0                 py36_0    qiime2/label/r2019.1
q2studio                  2019.1.0                  <pip>
q2templates               2019.1.0                 py36_0    qiime2/label/r2019.1
qiime2                    2019.1.0                 py36_0    qiime2/label/r2019.1
qt                        5.6.2             hbe13537_1012    conda-forge
r-assertthat              0.2.0            r341h6115d3f_1    conda-forge
r-base                    3.4.1                h4fe35fd_8    conda-forge
r-bh                      1.66.0_1              r341_1001    conda-forge
r-bitops                  1.0_6            r341hc070d10_2    conda-forge
r-cli                     1.0.0            r341h6115d3f_1    conda-forge
r-cluster                 2.0.7_1          r341h364d78e_0    conda-forge
r-colorspace              1.3_2            r341hc070d10_2    conda-forge
r-crayon                  1.3.4            r341h6115d3f_1    conda-forge
r-data.table              1.11.4           r341hc070d10_2    conda-forge
r-digest                  0.6.18           r341hc070d10_0    conda-forge
r-fansi                   0.3.0            r341hc070d10_0    conda-forge
r-formatr                 1.5              r341h6115d3f_1    conda-forge
r-futile.logger           1.4.3            r341h6115d3f_1    conda-forge
r-futile.options          1.0.1            r341h6115d3f_0    conda-forge
r-ggplot2                 3.1.0            r341h6115d3f_0    conda-forge
r-glue                    1.3.0            r341h470a237_2    conda-forge
r-gtable                  0.2.0            r341h6115d3f_1    conda-forge
r-hwriter                 1.3.2            r341h6115d3f_1    conda-forge
r-labeling                0.3              r341h6115d3f_1    conda-forge
r-lambda.r                1.2.3            r341h6115d3f_0    conda-forge
r-lattice                 0.20_35          r341hc070d10_0    conda-forge
r-latticeextra            0.6_28           r341h6115d3f_1    conda-forge
r-lazyeval                0.2.1            r341hc070d10_2    conda-forge
r-magrittr                1.5              r341h6115d3f_1    conda-forge
r-mass                    7.3_50           r341hc070d10_2    conda-forge
r-matrix                  1.2_14           r341hc070d10_2    conda-forge
r-matrixstats             0.54.0           r341hc070d10_0    conda-forge
r-mgcv                    1.8_24           r341hc070d10_2    conda-forge
r-munsell                 0.5.0            r341h6115d3f_1    conda-forge
r-nlme                    3.1_137          r341h364d78e_0    conda-forge
r-permute                 0.9_4                 r341_1002    conda-forge
r-pillar                  1.3.0            r341h6115d3f_0    conda-forge
r-plyr                    1.8.4            r341h9d2a408_2    conda-forge
r-r6                      2.2.2            r341h6115d3f_1    conda-forge
r-rcolorbrewer            1.1_2            r341h6115d3f_1    conda-forge
r-rcpp                    1.0.0            r341h9d2a408_0    conda-forge
r-rcppparallel            4.4.1            r341h9d2a408_0    conda-forge
r-rcurl                   1.95_4.11        r341hc070d10_3    conda-forge
r-reshape2                1.4.3            r341h9d2a408_2    conda-forge
r-rlang                   r341h470a237_0    conda-forge
r-scales                  1.0.0            r341h9d2a408_1    conda-forge
r-snow                    0.4_3            r341h6115d3f_0    conda-forge
r-stringi                 1.2.4            r341h9d2a408_1    conda-forge
r-stringr                 1.3.1            r341h6115d3f_1    conda-forge
r-tibble                  1.4.2            r341hc070d10_2    conda-forge
r-utf8                    1.1.4            r341hc070d10_0    conda-forge
r-vegan                   2.5_3            r341h364d78e_0    conda-forge
r-viridislite             0.3.0            r341h6115d3f_1    conda-forge
r-withr                   2.1.2            r341h6115d3f_0    conda-forge
raxml                     8.2.12               h470a237_0    bioconda
readline                  7.0               hf8c457e_1001    conda-forge
requests                  2.21.0                py36_1000    conda-forge
scikit-bio                0.5.5           py36h3010b51_1000    conda-forge
scikit-learn              0.20.2           py36hd81dba3_0  
scipy                     1.2.0            py36h7c811a0_0  
seaborn                   0.9.0                      py_0    conda-forge
send2trash                1.5.0                      py_0    conda-forge
setuptools                40.7.1                   py36_0    conda-forge
sina                      1.4.0                h4ef8376_0    bioconda
sip                       4.18.1          py36hf484d3e_1000    conda-forge
six                       1.12.0                py36_1000    conda-forge
sortmerna                 2.0                  he941832_3    bioconda
sqlite                    3.26.0            h67949de_1000    conda-forge
statsmodels               0.9.0           py36h3010b51_1000    conda-forge
tbb                       2019.3            h6bb024c_1000    conda-forge
terminado                 0.8.1                 py36_1001    conda-forge
testpath                  0.4.2                 py36_1000    conda-forge
tk                        8.6.9             h84994c4_1000    conda-forge
tornado                   5.1.1           py36h14c3975_1000    conda-forge
traitlets                 4.3.2                 py36_1000    conda-forge
tzlocal                   1.5.1                      py_0    conda-forge
unifrac                   0.9.3            py36h5a278d6_0    bioconda
urllib3                   1.24.1                py36_1000    conda-forge
vsearch                   2.7.0                         1    bioconda
wcwidth                   0.1.7                      py_1    conda-forge
webencodings              0.5.1                      py_1    conda-forge
Werkzeug                  0.14.1                    <pip>
wget                      1.19.5               h1ad7b7a_0  
wheel                     0.32.3                   py36_0    conda-forge
widgetsnbextension        3.4.2                 py36_1000    conda-forge
xopen                     0.4.1                      py_0    bioconda
xorg-kbproto              1.0.7             h14c3975_1002    conda-forge
xorg-libice               1.0.9             h14c3975_1004    conda-forge
xorg-libsm                1.2.3             h4937e3b_1000    conda-forge
xorg-libx11               1.6.6             h14c3975_1000    conda-forge
xorg-libxau               1.0.8             h14c3975_1006    conda-forge
xorg-libxdmcp             1.1.2             h14c3975_1007    conda-forge
xorg-libxext              1.3.3             h14c3975_1004    conda-forge
xorg-libxrender           0.9.10            h14c3975_1002    conda-forge
xorg-libxt                1.1.5             h14c3975_1002    conda-forge
xorg-renderproto          0.11.1            h14c3975_1002    conda-forge
xorg-xextproto            7.3.0             h14c3975_1002    conda-forge
xorg-xproto               7.0.31            h14c3975_1007    conda-forge
xz                        5.2.4             h14c3975_1001    conda-forge
yaml                      0.1.7             h14c3975_1001    conda-forge
zeromq                    4.2.5             hf484d3e_1006    conda-forge
zlib                      1.2.11            h14c3975_1004    conda-forge
zstd                      1.3.3                         1    conda-forge

Thanks for the details @Sky23,

Nothing is standing out too strongly to me, but your NodeJS version is a tiny bit old.

Let’s try updating that and see if it helps.

Run this in your QIIME 2 environment:

conda install -c conda-forge nodejs

Then re-run the npm install once you’ve confirmed you are using version 12.4.0 (or later).

Please attach a screenshot of the terminal and q2studio if that doesn’t help. Maybe there’s a clue in the traceback I can use.

Hi Evan,
I install the packages as suggested by you and then re-run the npm install.Please find all the output below I got after running the command. Also, after updating the package I ran the Alfa rarefying curve in studio again and got similar error. I am attaching the screenshot of studio for your view. Thank you.

(qiime2-2019.1) qiime2@qiime2core2019-1:~$ conda install -c conda-forge nodejs
Solving environment: done

==> WARNING: A newer version of conda exists. <==
  current version: 4.5.12
  latest version: 4.7.11

Please update conda by running

    $ conda update -n base -c defaults conda

## Package Plan ##

  environment location: /home/qiime2/miniconda/envs/qiime2-2019.1

  added / updated specs: 
    - nodejs

The following packages will be downloaded:

    package                    |            build
    nodejs-12.4.0              |       he1b5a44_0        18.1 MB  conda-forge
    blas-1.0                   |              mkl           6 KB
                                           Total:        18.1 MB

The following NEW packages will be INSTALLED:

    nodejs: 12.4.0-he1b5a44_0 conda-forge

The following packages will be UPDATED:

    blas:   1.0-mkl           conda-forge --> 1.0-mkl

Proceed ([y]/n)? y

Downloading and Extracting Packages
nodejs-12.4.0        | 18.1 MB   | ##################################### | 100% 
blas-1.0             | 6 KB      | ##################################### | 100% 
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
(qiime2-2019.1) qiime2@qiime2core2019-1:~$ npm install
npm WARN saveError ENOENT: no such file or directory, open '/home/qiime2/package.json'
npm notice created a lockfile as package-lock.json. You should commit this file.
npm WARN enoent ENOENT: no such file or directory, open '/home/qiime2/package.json'
npm WARN qiime2 No description
npm WARN qiime2 No repository field.
npm WARN qiime2 No README data
npm WARN qiime2 No license field.

up to date in 1.816s
found 0 vulnerabilities

(qiime2-2019.1) qiime2@qiime2core2019-1:~$ ^C
(qiime2-2019.1) qiime2@qiime2core2019-1:~$ 

Thanks @Sky23! Sorry I had missed your response. It looks like the screenshot failed to upload, would you be able to try again?

Otherwise, looks like nodejs installation worked as expected, so we can rule that out!

Thank you Evan.
Please find the screen shot of qiime2 studio with error in attachment.
Please let me know if you still not able to see it.

Thanks @Sky23!

Alright, that screenshot does indeed help, there are fewer ways for errors to happen which produce an alert dialog as shown, however, you parameters look just like mine when I tried this, so I think I need to see the terminal as well.

Could you take a screenshot of the terminal, when you see this alert? I’m hoping it will have a gross traceback I can use to figure out precisely what is going on.

(In general, the value None is not iterable, and None is also found everywhere so the message q2studio is showing you is unfortunately very unhelpful to us here :frowning:)

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Thank you so much Evan for your help.
Please find the screen shot of terminus at the time of error in Studio.
I cannot see anything in the terminus.

I tried both none and null for matrics. I got error both the time but they are slightly different in comments. Please see my last mail also for screen shot. Please let me know how can i correct this problem? Thank you.

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Hey @Sky23,

Thanks, unfortunately I need a different terminal (one that is hidden by the windowing system in your environment). Based on that screenshot I am pretty sure I know how it is being run, so I will attempt to reproduce in the same virtual environment.

I’m not certain I’ll be able to reproduce, but if nothing else, I will have a command for you to run which will give us the diagnostic logging we need (as soon as I figure out what that command will be precisely…)

Stay tuned (and don’t hesitate to ping me (@ebolyen) if I seem to have forgotten)!

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sure Evan. Thank you. I will wait for your response.

1 Like

Hi ebolyen,
Did you find any solution for the problem?
This is just a friendly reminder incase you forgot.
Thank you


Hi ebolyen,
Did you find any solution for the problem?

Thank you

1 Like

Hi @Sky23,

Thank you for the pings! And sorry it took so long to get back to you.

I downloaded the same virtual machine and tested the command on the moving pictures data, and I could not reproduce the error you are seeing.

But I was able to work out how to launch the interface in a way where we can see the detailed error when it happens:

What you’ll need to do is open a terminal and paste this command:

bash -c "/usr/bin/env PATH=/home/qiime2/miniconda/envs/qiime2-2019.1/bin:$(echo '$PATH') npm start --prefix /opt/q2studio-2019.1.0"

That should start q2studio just as if you had clicked on the button. Keep track of the output logged in this terminal, when you run the failing command again, we should see a detailed traceback which will help us figure out what exactly is going wrong.

1 Like

thank you ebolyn. Let me try it and I will get back to you.