Read raw data from USB port

[Vined Adobo]

Hi all,

Background: I have a CMS 50e pulse oximeter which I need to use for sleep studies to tell, while sleeping, when my percent of oxygen gets too low, how low it gets, and how many events below 87% saturation occur. I desperately wish to discontinue my nighttime oxygen use through dieting and exercizing. To do this, I must do periodic sleep studies.

Obstacle: the pulse oximeter will record up to 24 hours of data which uploads to my laptop through a USB connection. The software is poorly engineered, almost impossible to install (drivers try to install over other devices in use,) and contains sorely deficient documentation. The data is still uploading when the software generates its report, so report suddenly stops at random amounts of data. Searching on the internet, I have discovered that this is a common (universal?) problem

Hopeful workaround: The data is stored in CSV format. If I could capture data stream for entire upload, I could import it into Open Office and create my own accurate report. The longest report my software generates has been 5 hours of sleep.


Question (finally!): Does anyone know how to capture a raw USB stream? Here is what I have so far:

rumrunner@FUSION-UBUNTU:/dev$ lsusb
Bus 001 Device 002: ID 5986:0100 Acer, Inc OrbiCam
Bus 001 Device 001: ID 1d6b:0002 Linux Foundation 2.0 root hub
Bus 005 Device 001: ID 1d6b:0001 Linux Foundation 1.1 root hub
Bus 004 Device 001: ID 1d6b:0001 Linux Foundation 1.1 root hub
Bus 003 Device 003: ID 10c4:ea60 Cygnal Integrated Products, Inc. CP210x Composite Device
Bus 003 Device 001: ID 1d6b:0001 Linux Foundation 1.1 root hub
Bus 002 Device 001: ID 1d6b:0001 Linux Foundation 1.1 root hub
rumrunner@FUSION-UBUNTU:/dev$

The Cygnal Integrated Products port is what I want to capture

rumrunner@FUSION-UBUNTU:/etc$ sudo mount /dev/sda1 /mnt/USB
rumrunner@FUSION-UBUNTU:/etc$ cd /mnt/USB

# At this point, I uploaded the data from the SPO2#

rumrunner@FUSION-UBUNTU:/mnt/USB$ ls -la
drwxrwxrwx 1 root root 8192 2008-10-05 01:48 .
drwxr-xr-x 3 root root 4096 2009-05-18 13:44 ..
-rwxrwxrwx 1 root root 490 2005-09-29 02:35 ACERBP.P2
-rwxrwxrwx 1 root root 29 2007-09-27 14:36 aimdrs.dat
drwxrwxrwx 1 root root 0 2007-06-04 00:13 AUTORUN
-rwxrwxrwx 1 root root 356 2005-07-14 23:25 BACKUP.NAP
drwxrwxrwx 1 root root 0 2007-06-04 00:13 BitLocker
-rwxrwxrwx 1 root root 37376 2005-07-29 18:13 BOOT.DAT
drwxrwxrwx 1 root root 0 2007-06-04 00:13 D2D
-rwxrwxrwx 1 root root 888832 2006-12-22 01:42 D2D32.EXE
-rwxrwxrwx 2 root root 78 2007-06-04 15:34 DrAssign2C.ini
drwxrwxrwx 1 root root 0 2007-06-04 15:34 FACTORY
-rwxrwxrwx 1 root root 6656 2005-06-27 10:28 FATBOOT.BIN
-rwxrwxrwx 1 root root 153 2005-12-15 03:12 FmtFAT32.INI
-rwxrwxrwx 1 root root 69632 2003-09-30 23:29 int15.sys
-rwxrwxrwx 1 root root 512 2005-06-25 20:49 MBR.BIN
drwxrwxrwx 1 root root 4096 2007-06-04 00:12 Minint
-rwxrwxrwx 1 root root 1359 2006-11-12 02:57 model.dat
-rwxrwxrwx 1 root root 67 2006-09-16 02:18 NAPP.DAT
-rwxrwxrwx 2 root root 302 2007-06-04 15:23 NewPartDisk.ini
-rwxrwxrwx 1 root root 47772 2005-03-25 05:00 ntdetect.com
-rwxrwxrwx 1 root root 298096 2005-03-25 05:00 ntldr
-rwxrwxrwx 1 root root 230 2007-06-04 15:58 OBR3.acr
-rwxrwxrwx 1 root root 70 2005-09-12 09:20 OBR3.ini
-rwxrwxrwx 1 root root 11 2005-07-07 20:31 P1.DAT
-rwxrwxrwx 2 root root 125 2005-12-28 20:12 PARTITION.ALL
drwxrwxrwx 1 root root 0 2006-11-02 03:22 ProgramData
drwxrwxrwx 1 root root 0 2006-11-02 03:23 Program Files
-rwxrwxrwx 1 root root 207 2007-04-10 04:58 RCD.DAT
-rwxrwxrwx 2 root root 382 2005-12-19 06:54 RestoreFAT32.INI
drwxrwxrwx 1 root root 12288 2007-06-04 00:13 RYTOOLS
-rwxrwxrwx 1 root root 116 2007-04-27 08:37 SCD.DAT
drwxrwxrwx 1 root root 0 2006-11-11 03:50 sources
-rwxrwxrwx 1 root root 80 2007-04-27 03:10 SWCD.DAT
drwxrwxrwx 1 root root 4096 2007-06-04 15:41 System Volume Information
-rwxrwxrwx 1 root root 131072 2005-08-23 20:02 UNICODE.BIN
drwxrwxrwx 1 root root 0 2006-11-02 03:22 Users
drwxrwxrwx 1 root root 8192 2008-08-31 03:30 Windows
rumrunner@FUSION-UBUNTU:/mnt/USB$


Can anyone help me out from here?

Thank you,
David Boone

[sambaig]

Hi all,

Background: I have a CMS 50e pulse oximeter which I need to use for sleep studies to tell, while sleeping, when my percent of oxygen gets too low, how low it gets, and how many events below 87% saturation occur. I desperately wish to discontinue my nighttime oxygen use through dieting and exercizing. To do this, I must do periodic sleep studies.

Obstacle: the pulse oximeter will record up to 24 hours of data which uploads to my laptop through a USB connection. The software is poorly engineered, almost impossible to install (drivers try to install over other devices in use,) and contains sorely deficient documentation. The data is still uploading when the software generates its report, so report suddenly stops at random amounts of data. Searching on the internet, I have discovered that this is a common (universal?) problem

Hopeful workaround: The data is stored in CSV format. If I could capture data stream for entire upload, I could import it into Open Office and create my own accurate report. The longest report my software generates has been 5 hours of sleep.


Question (finally!): Does anyone know how to capture a raw USB stream? Here is what I have so far:

rumrunner@FUSION-UBUNTU:/dev$ lsusb
Bus 001 Device 002: ID 5986:0100 Acer, Inc OrbiCam
Bus 001 Device 001: ID 1d6b:0002 Linux Foundation 2.0 root hub
Bus 005 Device 001: ID 1d6b:0001 Linux Foundation 1.1 root hub
Bus 004 Device 001: ID 1d6b:0001 Linux Foundation 1.1 root hub
Bus 003 Device 003: ID 10c4:ea60 Cygnal Integrated Products, Inc. CP210x Composite Device
Bus 003 Device 001: ID 1d6b:0001 Linux Foundation 1.1 root hub
Bus 002 Device 001: ID 1d6b:0001 Linux Foundation 1.1 root hub
rumrunner@FUSION-UBUNTU:/dev$

The Cygnal Integrated Products port is what I want to capture

rumrunner@FUSION-UBUNTU:/etc$ sudo mount /dev/sda1 /mnt/USB
rumrunner@FUSION-UBUNTU:/etc$ cd /mnt/USB

# At this point, I uploaded the data from the SPO2#

rumrunner@FUSION-UBUNTU:/mnt/USB$ ls -la
drwxrwxrwx 1 root root 8192 2008-10-05 01:48 .
drwxr-xr-x 3 root root 4096 2009-05-18 13:44 ..
-rwxrwxrwx 1 root root 490 2005-09-29 02:35 ACERBP.P2
-rwxrwxrwx 1 root root 29 2007-09-27 14:36 aimdrs.dat
drwxrwxrwx 1 root root 0 2007-06-04 00:13 AUTORUN
-rwxrwxrwx 1 root root 356 2005-07-14 23:25 BACKUP.NAP
drwxrwxrwx 1 root root 0 2007-06-04 00:13 BitLocker
-rwxrwxrwx 1 root root 37376 2005-07-29 18:13 BOOT.DAT
drwxrwxrwx 1 root root 0 2007-06-04 00:13 D2D
-rwxrwxrwx 1 root root 888832 2006-12-22 01:42 D2D32.EXE
-rwxrwxrwx 2 root root 78 2007-06-04 15:34 DrAssign2C.ini
drwxrwxrwx 1 root root 0 2007-06-04 15:34 FACTORY
-rwxrwxrwx 1 root root 6656 2005-06-27 10:28 FATBOOT.BIN
-rwxrwxrwx 1 root root 153 2005-12-15 03:12 FmtFAT32.INI
-rwxrwxrwx 1 root root 69632 2003-09-30 23:29 int15.sys
-rwxrwxrwx 1 root root 512 2005-06-25 20:49 MBR.BIN
drwxrwxrwx 1 root root 4096 2007-06-04 00:12 Minint
-rwxrwxrwx 1 root root 1359 2006-11-12 02:57 model.dat
-rwxrwxrwx 1 root root 67 2006-09-16 02:18 NAPP.DAT
-rwxrwxrwx 2 root root 302 2007-06-04 15:23 NewPartDisk.ini
-rwxrwxrwx 1 root root 47772 2005-03-25 05:00 ntdetect.com
-rwxrwxrwx 1 root root 298096 2005-03-25 05:00 ntldr
-rwxrwxrwx 1 root root 230 2007-06-04 15:58 OBR3.acr
-rwxrwxrwx 1 root root 70 2005-09-12 09:20 OBR3.ini
-rwxrwxrwx 1 root root 11 2005-07-07 20:31 P1.DAT
-rwxrwxrwx 2 root root 125 2005-12-28 20:12 PARTITION.ALL
drwxrwxrwx 1 root root 0 2006-11-02 03:22 ProgramData
drwxrwxrwx 1 root root 0 2006-11-02 03:23 Program Files
-rwxrwxrwx 1 root root 207 2007-04-10 04:58 RCD.DAT
-rwxrwxrwx 2 root root 382 2005-12-19 06:54 RestoreFAT32.INI
drwxrwxrwx 1 root root 12288 2007-06-04 00:13 RYTOOLS
-rwxrwxrwx 1 root root 116 2007-04-27 08:37 SCD.DAT
drwxrwxrwx 1 root root 0 2006-11-11 03:50 sources
-rwxrwxrwx 1 root root 80 2007-04-27 03:10 SWCD.DAT
drwxrwxrwx 1 root root 4096 2007-06-04 15:41 System Volume Information
-rwxrwxrwx 1 root root 131072 2005-08-23 20:02 UNICODE.BIN
drwxrwxrwx 1 root root 0 2006-11-02 03:22 Users
drwxrwxrwx 1 root root 8192 2008-08-31 03:30 Windows
rumrunner@FUSION-UBUNTU:/mnt/USB$


Can anyone help me out from here?

Thank you,
David Boone

I am trying to same. Were you able to load data?

Sam Baig
1-281-935-3171
sbaig04@yahoo.com

[HermanAB]

Howdy,

I would plug the device in and see with 'dmesg' whether it is recognized as a device. If so, confirm the device name in /dev then simply use 'cat' to dump data from the device to a file and then look at it with 'hexeditor'.

# dmesg
... device xxx ...
# ls /dev/xxx*
...
xxx1
...
# cat /dev/xxx1 > filename
...long wait...
ctrl-d
# hexedit filename

Hope that helps!

[Vined Adobo]

I am trying to same. Were you able to load data?

Sam Baig
1-281-935-3171
sbaig04@yahoo.com

I was able to see it with the dmesg command These were the extra lines added at the bottom when the device was plugged in:

[ 1262.676089] usb 5-1: new full speed USB device using uhci_hcd and address 2
[ 1262.838749] usb 5-1: configuration #1 chosen from 1 choice
[ 1263.149567] usbcore: registered new interface driver usbserial
[ 1263.149602] USB Serial support registered for generic
[ 1263.149665] usbcore: registered new interface driver usbserial_generic
[ 1263.149671] usbserial: USB Serial Driver core
[ 1263.601896] USB Serial support registered for cp2101
[ 1263.601951] cp2101 5-1:1.0: cp2101 converter detected
[ 1263.712081] usb 5-1: reset full speed USB device using uhci_hcd and address 2
[ 1263.862265] usb 5-1: cp2101 converter now attached to ttyUSB0
[ 1263.862302] usbcore: registered new interface driver cp2101
[ 1263.862309] cp2101: v0.07:Silicon Labs CP2101/CP2102 RS232 serial adaptor driver

The only thing that changed in /dev was ttyUSB0 being added.
I typed cat ttyUSB0 > /home/dave/spo2. The cursor went into wait just as advertised. After the upload was completed, I unplugged the device and the cursor came back. A file titled spo was made in my home directory, but the file was empty. I never got it working on Vista, and it doesn't work in WINE installed as an XP either. I guess I was lucky to get it running in windows XP.
Back to the drawing board.

[Vined Adobo]

bump

[t4thfavor]

Any news on this, if you have a device, and the file was created, then it is possible. Maybe post the file so that others can analyze the format, maybe you got yourself a new FOSS project.

[HermanAB]

Howdy,

It looks like you need to install the USB Serial driver and then dump /dev/usb/ttyUSB0 or some such to a file using cat.

[rnerwein]

hi
the cat command coudn't work because cat is reading from stdion. ( it's possible to use cat but cat is not designed to
handle raw data.
1. figure out your mount point of the usb: mout command will show you the stuff.
2. if your usb is mounted on /dev/sdX (X is your divice) use dd this works !
--> dd if=/dev/sdX of=/your_path/your_file bs=4k
in your file you will have now a exact copy of your usb data
ciao

[iphands]

Vined Adobo, sambaig,

My father has one of these devices. I hooked it up to his laptop yesterday, and found that the provided software did not work under wine.

I hacked together my own Java + SWT over the past couple of days (it is really poorly written at this point.. will clean up and add features soon).

I have attached a pic.

Also the code should be attainable, buildable, and runnable by following this procedure:

$ git clone http://github.com/iphands/PulseOx.git
$ cd PulseOx/workspace/PulseOx/
$ mkdir -p jars ; cp /path_to_your_swt.jar ./jars
$ ant
$ java -jar pulseox.jar

Please let me know if this does or does not work for you. I am not running ubuntu, but java is java (though SWT is platform specific).

Oh and for the moment the /dev/ttyUSB0 path is hard coded.

Thanks,
-Ian Page Hands

edit:
See my website for up to date information http://ian.ahands.org/progs/pulseox/

[Vined Adobo]

Vined Adobo, sambaig,

My father has one of these devices. I hooked it up to his laptop yesterday, and found that the provided software did not work under wine.

I hacked together my own Java + SWT over the past couple of days (it is really poorly written at this point.. will clean up and add features soon).

I have attached a pic.

Also the code should be attainable, buildable, and runnable by following this procedure:

$ git clone http://github.com/iphands/PulseOx.git
$ cd PulseOx/workspace/PulseOx/
$ mkdir -p jars ; cp /path_to_your_swt.jar ./jars
$ ant
$ java -jar pulseox.jar

Please let me know if this does or does not work for you. I am not running ubuntu, but java is java (though SWT is platform specific).

Oh and for the moment the /dev/ttyUSB0 path is hard coded.

Thanks,
-Ian Page Hands

edit:
See my website for up to date information http://ian.ahands.org/progs/pulseox/

It went well for me until I got to:
$ mkdir -p jars ; cp /path_to_your_swt.jar ./jars

I did it in two steps instead of both on the same command line. The directory was made, but when I used cp /path_to_your_swt.jar ./jars, I got the following:

[:~/PulseOx/workspace/PulseOx] $ cp /usr/share/jni ./jars
cp: omitting directory `/usr/share/jni'

Now I have to admit I am not proficient at Linux systems, so I don't even really know if I got the path right (although the library liibswt-gtk-3452.so is in the directory listed. Also, I can't find where any link was created. When I typed ant, I got 100 errors. I hope you can help. I'm getting closer anyway!


thank you,
Dave