Hi all,
I am downloading the folder syn22287051. Whether I use R, Python, or the command line to download, I can only download the BAAJ-Young_Spleen-AS010-1_S1_L001_R2_001.fastq.gz file, and the other files always stopped at 99% without any change. I changed to download the file one by one by 'synapse get syn22292461', it also encountered the same problems. Could someone help me out? Thanks in advance!
Sincerely,
Ziqing He
Created by ziqing he heziqing Regarding 99% download, you could add the `--debug` option to help find the point where the download fails, e.g.
```
synapse --debug get syn22292461
```
For me, it works:
```
% synapse --debug get syn22292461
Synapse username (leave blank if using an auth token):
Auth token:
...
Downloading [--------------------]0.12% 8.0MB/6.4GB (4.2MB/s) BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz.s
Downloading [--------------------]0.24% 16.0MB/6.4GB (8.1MB/s) BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz.
Downloading [--------------------]0.37% 24.0MB/6.4GB (11.4MB/s) BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz
...
Downloading [####################]99.76% 6.4GB/6.4GB (31.8MB/s) BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz
Downloading [####################]99.88% 6.4GB/6.4GB (31.7MB/s) BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz
Downloading [####################]100.00% 6.4GB/6.4GB (31.7MB/s) BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz.synapse_download_63516655 Done...
Downloaded file: BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz
2021-07-15 15:36:49,866 [__main__:118 - INFO]: Downloaded file: BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz
Creating /Users/bhoff/BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz
2021-07-15 15:36:49,867 [__main__:123 - INFO]: Creating /Users/bhoff/BAAJ-Aged_Spleen-AS010-2_S3_L001_R1_001.fastq.gz
``` Something's wrong with your network connection. You should not be seeing the error
```
Exception in version check: ('Connection aborted.', ConnectionResetError(104, 'Connection reset by peer'))
```
when you simply log in. For example this is what it looks like for me:
```
% synapse login -u brucehoff
Password, api key, or auth token for user brucehoff:
Welcome, Bruce Hoff!
Logged in as: brucehoff (273960)
```
Do you have trouble connecting to other web sites? Can you try the following, using the [curl](https://curl.se/download.html)command-line web client?
```
curl -i https://raw.githubusercontent.com/Sage-Bionetworks/synapsePythonClient/master/synapseclient/synapsePythonClient
```
You should get something like:
```
HTTP/2 200
cache-control: max-age=300
content-security-policy: default-src 'none'; style-src 'unsafe-inline'; sandbox
content-type: text/plain; charset=utf-8
etag: "e1361a7c3c4d4ec3d3ded4b55cd8e869646aac6d3bb18bea561516b45bea02f8"
strict-transport-security: max-age=31536000
x-content-type-options: nosniff
x-frame-options: deny
x-xss-protection: 1; mode=block
x-github-request-id: E0EA:73FE:1FD1E1:2EDA10:60F03F23
accept-ranges: bytes
date: Thu, 15 Jul 2021 14:00:21 GMT
via: 1.1 varnish
x-served-by: cache-sea4437-SEA
x-cache: HIT
x-cache-hits: 1
x-timer: S1626357622.925051,VS0,VE0
vary: Authorization,Accept-Encoding
access-control-allow-origin: *
x-fastly-request-id: bd26d72d9938f454d7d96fc2e8a564d9d1edc54f
expires: Thu, 15 Jul 2021 14:05:21 GMT
source-age: 82
content-length: 216
{
"client":"synapsePythonClient",
"latestVersion":"2.4.0",
"blacklist":["0.0.0", "0.4.1", "0.4.0", "0.3.0", "0.2.1", "0.2.0", "0.1.4"],
"releaseNotes":"https://python-docs.synapse.org/build/html/news.html"
}
```
Hi,
I am using the latest Python and command line client. I always encountered this error when I log in. It still works, but can't download the full file.
```
synapse --version
Synapse Client 2.4.0
synapse login -u heziqing -p
Exception in version check: ('Connection aborted.', ConnectionResetError(104, 'Connection reset by peer'))
Welcome, ziqing he!
Logged in as: heziqing (3425589)
python
Python 3.9.5 (default, Jun 4 2021, 12:28:51)
[GCC 7.5.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import synapseclient
>>> synapseclient.__version__
'2.4.0'
```
Sorry for the inconvenience. Can you verify you are using the lastest Python or command line client? For example:
In Python:
```
>>> import synapseclient
>>> synapseclient.__version__
'2.4.0'
```
Command line:
```
% synapse --version
Synapse Client 2.4.0
```
We don't recommend R for large file transfer since the language is inherently single threaded.
Drop files to upload
Stop at 99% when downloading files page is loading…