BUG - can't unpack temporal csv on mac

[collinschwantes]

Stems from @arw36's issue #156

Is the only citation information that which is provided in the provenance.csv? I was surprised to see many entries missing author information, as well as lots of bibliographic short hand that make it difficult/impossible to find the original source. Why aren't full references details provided?

I did try to download temporal.csv as well, but it wouldn't unpack on my mac.

[collinschwantes]

@arw36 is this the same error you were getting?

[collinschwantes]

[arw36]

I simply tried to open the file after download. I haven't explored other unpacking methods. Other files from the Zenodo deposit (e.g., provenance.csv.gz) unpacked as normal.

[collinschwantes]

@arw36 we also have the virionData R package which facilitates accessing the data from zenodo https://viralemergence.github.io/virionData/articles/virionData.html

For me, the point an click downloading from Zenodo is the problem.

[collinschwantes]

# default is the latest version of the data on Zenodo
# sometimes it takes a second
virionData::get_versioned_data( dir_path = "test_virion")

virion <- vroom::vroom(file = "test_virion/17636397/virion.csv.gz")

temporal <- vroom::vroom(file = "test_virion/17636397/temporal.csv.gz")

reference <- vroom::vroom(file = "test_virion/17636397/provenance.csv.gz")

[collinschwantes]

Python:

 virion = deposit()
 virion.set_working_version(virion.latest_version)
 virion_df =  virion.get_latest_dataframe(file_key = "virion")

[collinschwantes]

same error if you use the following code which is strange because it looks like vroom uses curl_download with the same settings as we are using for our virionData download functions.

vroom::vroom(file = "https://zenodo.org/api/records/20532125/files/tax_table.csv.gz/content")