3D Backprojection using PubSub
- Login to master node of cluster, where PubSub has been
installed and is running, e.g.:
ssh peebles
- Access your working_dir, e.g.:
cd /usr1/user/bp
- Create input and output sub-directories as necessary, e.g.:
mkdir input output
- Copy all the necessary input data files, i.e.:
Image selection doc. file(s),
Projection angles doc. file(s), and
Aligned projections
to the input directory e.g.:
scp 'user@sylt.wadsworth.org:/usr1/user/bp/angles_both.dat' input
scp 'user@sylt.wadsworth.org:/usr1/user/bp/sel003.dat' input
scp 'user@sylt.wadsworth.org:/usr1/user/bp/k35_rtsq_*.dat' input
- Copy bp3d_slab_pub.spi
procedure file to the working directory, e.g.:
scp -v '/net/bali/usr1/spider/proc/bp3d_slab_pub.spi' .
(Note: /net/bali/usr1 is mounted on peebles)
- Edit bp3d_slab_pub.spi to set
necessary values for input parameters and input file names, e.g.
xedit bp3d_slab_pub.spi
The Number of slabs/nodes, and the dimensions are determined by input image dimensions.
- Copy a specific SPIDER to your working directory (ensures that same SPIDER
executable is used throughout whole run), e.g.:
ln -s /usr/local/spider/bin/spider_linux_mpfftw_opt64.14.18.5 spider
- Start Master SPIDER process bp3d_slab_pub.spi, e.g.
./spider spi/dat @bp3d_slab_pub 0 &
- Master SPIDER refinement process will create and publish
new SPIDER jobs as necessary.
Source file: /net/bali/usr1/spider/pubsub/bp3d_pub.html
Updated: 8/28/06
ArDean Leith