Hi William, I can confirm that the phate module is installed for Python 3 on malbec1:
biocbuild@malbec1:~$ python3 Python 3.6.9 (default, Nov 7 2019, 10:44:02) [GCC 8.3.0] on linux Type "help", "copyright", "credits" or "license" for more information. >>> import phate >>> phate.__version__ '0.4.5' However please note that it is NOT installed for Python 2: biocbuild@malbec1:~$ python Python 2.7.17 (default, Nov 7 2019, 10:07:09) [GCC 7.4.0] on linux2 Type "help", "copyright", "credits" or "license" for more information. >>> import phate Traceback (most recent call last): File "<stdin>", line 1, in <module> ImportError: No module named phate So make sure you invoke Python 3. Best, H. On 12/22/19 22:51, William Chen wrote: > Hi all, > > A package I maintain on Bioconductor ('phemd') has failed R CMD check on > two of three of the Bioconductor builders (tokay1 and malbec1) with the > following error message: > > Error in py_module_import(module, convert = convert) : > > ImportError: No module named phate > > > It looks like this package (or one of its dependent packages) has an > > unstated dependence on a standard package. All dependencies must be > > declared in DESCRIPTION. > > See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ > > manual. > > * checking whether the package can be unloaded cleanly ... WARNING > > ---- unloading > > * checking whether the namespace can be loaded with stated dependencies ... > WARNING > > Error in py_module_import(module, convert = convert) : > > ImportError: No module named phate > > > A namespace must be able to be loaded with just the base namespace > > loaded: otherwise if the namespace gets loaded by a saved object, the > > session will be unable to start. > > I have been told that the 'phate' python module is unable to be installed > on tokay1 which uses Python2 (phate requires Python3) but that it has been > installed on the malbec1 builder such that the error should not be occuring > on that build. I have tried without avail to fix this / search for a > solution online (including the 'Writing R Extensions' manual). Any > recommendations on how to address this issue? > > Link to build: > https://urldefense.proofpoint.com/v2/url?u=https-3A__master.bioconductor.org_checkResults_3.10_bioc-2DLATEST_phemd_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=F3I6u7a5ehHjXSCdocoJZt6QyxonF1Mr9yERW8nrkJg&s=0mydgs8zLKpjMbGeLEhBkhh8phXWfQi2pXPF431wR10&e= > > Thanks! > Will > > ᐧ > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=F3I6u7a5ehHjXSCdocoJZt6QyxonF1Mr9yERW8nrkJg&s=ZoAsmfsXMbKVd97M8Gy9hqBAIKWHz07tGe4YkCtmlE8&e= > -- Hervé Pagès Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpa...@fredhutch.org Phone: (206) 667-5791 Fax: (206) 667-1319 _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel