ascl_id stringclasses 752
values | repo_url stringclasses 737
values | file_path stringlengths 4 194 | content large_stringlengths 1 1M | language stringclasses 29
values | license_type stringclasses 24
values | size int64 1 1M |
|---|---|---|---|---|---|---|
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/editcol.c | /* This file, editcol.c, contains the set of FITSIO routines that */
/* insert or delete rows or columns in a table or resize an image */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* Goddard Space... | C | null | 111,493 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/drvrnet.c | /* This file, drvrhttp.c contains driver routines for http, ftp and root
files. */
/* This file was written by Bruce O'Neel at the ISDC, Switzerland */
/* The FITSIO software is maintained by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA ... | C | null | 128,200 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcoli.c | /* This file, putcoli.c, contains routines that write data elements to */
/* a FITS image or table, with short datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 35,662 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/simplerng.h | /*
Simple Random Number Generators
- getuniform - uniform deviate [0,1]
- getnorm - gaussian (normal) deviate (mean=0, stddev=1)
- getpoisson - poisson deviate for given expected mean lambda
This code is adapted from SimpleRNG by John D Cook, which is
provided in the public domain.
... | C/C++ Header | null | 1,078 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/modkey.c | /* This file, modkey.c, contains routines that modify, insert, or update */
/* keywords in a FITS header. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 66,777 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/getcole.c | /* This file, getcole.c, contains routines that read data elements from */
/* a FITS image or table, with float datatype */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 71,012 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/region.c | #include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include <math.h>
#include <ctype.h>
#include "fitsio2.h"
#include "region.h"
static int Pt_in_Poly( double x, double y, int nPts, double *Pts );
/*---------------------------------------------------------------------------*/
int fits_read_rgnfile( const char ... | C | null | 57,372 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/edithdu.c | /* This file, edithdu.c, contains the FITSIO routines related to */
/* copying, inserting, or deleting HDUs in a FITS file */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* Goddard S... | C | null | 32,727 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/swapproc.c | /* This file, swapproc.c, contains general utility routines that are */
/* used by other FITSIO routines to swap bytes. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 7,703 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/eval_f.c | /************************************************************************/
/* */
/* CFITSIO Lexical Parser */
/* */
/* This file is one ... | C | null | 104,344 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcols.c | /* This file, putcols.c, contains routines that write data elements to */
/* a FITS image or table, of type character string. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 10,944 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcole.c | /* This file, putcole.c, contains routines that write data elements to */
/* a FITS image or table, with float datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 39,515 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/windumpexts.c | /*
* winDumpExts.c --
* Author: Gordon Chaffee, Scott Stanton
*
* History: The real functionality of this file was written by
* Matt Pietrek in 1993 in his pedump utility. I've
* modified it to dump the externals in a bunch of object
* files to create a .def file.
*
* 10/12/9... | C | null | 13,037 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/iter_a.c | #include <string.h>
#include <stdio.h>
#include <stdlib.h>
#include "fitsio.h"
/*
This program illustrates how to use the CFITSIO iterator function.
It reads and modifies the input 'iter_a.fit' file by computing a
value for the 'rate' column as a function of the values in the other
'counts' and 'time' columns.... | C | null | 5,261 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcolk.c | /* This file, putcolk.c, contains routines that write data elements to */
/* a FITS image or table, with 'int' datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 36,612 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/eval_l.c | #line 1 "eval_l.c"
#line 3 "eval_l.c"
#define YY_INT_ALIGNED short int
/* A lexical scanner generated by flex */
/* Suppress unused static function warning for 'input()' */
#define YY_NO_INPUT 1
#define FLEX_SCANNER
#define YY_FLEX_MAJOR_VERSION 2
#define YY_FLEX_MINOR_VERSION 6
#define YY_FLEX_SUBMINOR_VERSION 4... | C | null | 85,495 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/cfileio.c | /* This file, cfileio.c, contains the low-level file access routines. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* Goddard Space Flight Center. */
#inclu... | C | null | 265,936 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/f77_wrap4.c | /************************************************************************
f77_wrap1.c and f77_wrap2.c have now been split into 4 files to
prevent compile-time memory errors (from expansion of compiler commands).
f77_wrap1.c was split into f77_wrap1.c and f77_wrap3.c, and
f77_wrap2.c was split into ... | C | null | 19,467 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcolui.c | /* This file, putcolui.c, contains routines that write data elements to */
/* a FITS image or table, with unsigned short datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA ... | C | null | 35,051 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/scalnull.c | /* This file, scalnull.c, contains the FITSIO routines used to define */
/* the starting heap address, the value scaling and the null values. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 8,973 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/f77_wrap1.c | /************************************************************************
f77_wrap1.c and f77_wrap2.c have now been split into 4 files to
prevent compile-time memory errors (from expansion of compiler commands).
f77_wrap1.c was split into f77_wrap1.c and f77_wrap3.c, and
f77_wrap2.c was split into ... | C | null | 12,827 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/eval_tab.h | /* A Bison parser, made by GNU Bison 3.8.2. */
/* Bison interface for Yacc-like parsers in C
Copyright (C) 1984, 1989-1990, 2000-2015, 2018-2021 Free Software Foundation,
Inc.
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as pub... | C/C++ Header | null | 4,954 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/iter_b.f | program f77iterate_b
C external work function is passed to the iterator
external str_iter
integer ncols
parameter (ncols=2)
integer units(ncols), colnum(ncols), datatype(ncols)
integer iotype(ncols), offset, rows_per_loop, status
character*70 colname(ncols)
integer... | Fortran | null | 5,679 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/getcolb.c | /* This file, getcolb.c, contains routines that read data elements from */
/* a FITS image or table, with unsigned char (unsigned byte) data type. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 78,370 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/fitscore.c | /* This file, fitscore.c, contains the core set of FITSIO routines. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* Goddard Space Flight Center. */
/*
Cop... | C | null | 323,482 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/CMakeLists.txt | #==============================================================================
# CFITSIO CMakeLists.txt
#==============================================================================
# Ensure that build directory is not the source directory:
IF(${CMAKE_SOURCE_DIR} STREQUAL ${CMAKE_BINARY_DIR})
message(FATAL_ERROR
... | Text | null | 12,748 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/fitsio2.h | #ifndef _FITSIO2_H
#define _FITSIO2_H
#include "fitsio.h"
/*
Threading support using POSIX threads programming interface
(supplied by Bruce O'Neel)
All threaded programs MUST have the
-D_REENTRANT
on the compile line and must link with -lpthread. This means that
when one builds cfitsio... | C/C++ Header | null | 66,140 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/getcoll.c | /* This file, getcoll.c, contains routines that read data elements from */
/* a FITS image or table, with logical datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 23,298 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/grparser.h | /* T E M P L A T E P A R S E R H E A D E R F I L E
=====================================================
by Jerzy.Borkowski@obs.unige.ch
Integral Science Data Center
ch. d'Ecogia 16
1290 Versoix
Switzerland
14-Oct-98: initial release
16-Oct-98: reference to fitsio.h removed, also removed strings a... | C/C++ Header | null | 5,725 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/f77_wrap3.c | /************************************************************************
f77_wrap1.c and f77_wrap2.c have now been split into 4 files to
prevent compile-time memory errors (from expansion of compiler commands).
f77_wrap1.c was split into f77_wrap1.c and f77_wrap3.c, and
f77_wrap2.c was split into ... | C | null | 33,790 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/drvrsmem.h | /* S H A R E D M E M O R Y D R I V E R
=======================================
by Jerzy.Borkowski@obs.unige.ch
09-Mar-98 : initial version 1.0 released
23-Mar-98 : shared_malloc now accepts new handle as an argument
*/
#include <sys/ipc.h> /* this is necessary for Solaris/Linux */
#include <sys/shm.h>
#... | C/C++ Header | null | 6,536 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/getcolsb.c | /* This file, getcolsb.c, contains routines that read data elements from */
/* a FITS image or table, with signed char (signed byte) data type. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* G... | C | null | 77,379 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/iter_image.c | #include <string.h>
#include <stdio.h>
#include <stdlib.h>
#include "fitsio.h"
/*
This program illustrates how to use the CFITSIO iterator function.
It reads and modifies the input 'iter_image.fit' image file by setting
all the pixel values to zero (DESTROYING THE ORIGINAL IMAGE!!!)
*/
int main()
{
extern in... | C | null | 3,082 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/simplerng.c | /*
Simple Random Number Generators
- getuniform - uniform deviate [0,1]
- getnorm - gaussian (normal) deviate (mean=0, stddev=1)
- getpoisson - poisson deviate for given expected mean lambda
This code is adapted from SimpleRNG by John D Cook, which is
provided in the public domain.
... | C | null | 13,925 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/fits_hcompress.c | /* #########################################################################
These routines to apply the H-compress compression algorithm to a 2-D Fits
image were written by R. White at the STScI and were obtained from the STScI at
http://www.stsci.edu/software/hcompress.html
This source file is a concatination of th... | C | null | 47,306 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/vmsieee.c | #include <cvtdef.h>
#include <cvtmsg.h>
unsigned long CVT$CONVERT_FLOAT();
/* IEEVPAKR -- Pack a native floating point vector into an IEEE one.
*/
void ieevpr (unsigned int *native, unsigned int *ieee, int *nelem)
{
unsigned long status;
unsigned long options;
unsigned int *unanval;
in... | C | null | 3,782 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/zuncompress.c | /* gzcompress.h -- definitions for the .Z decompression routine used in CFITSIO */
#include <stdlib.h>
#include <stdio.h>
#include <string.h>
#include <ctype.h>
#define get_char() get_byte()
/* gzip.h -- common declarations for all gzip modules */
#define OF(args) args
typedef void *voidp;
#define memzero(s, n) ... | C | null | 16,425 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/iter_c.c | #include <string.h>
#include <stdio.h>
#include <stdlib.h>
#include "fitsio.h"
/*
This example program illustrates how to use the CFITSIO iterator function.
This program creates a 2D histogram of the X and Y columns of an event
list. The 'main' routine just creates the empty new image, then executes
... | C | null | 6,020 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/getcoli.c | /* This file, getcoli.c, contains routines that read data elements from */
/* a FITS image or table, with short datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 74,917 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/drvrgsiftp.c |
/* This file, drvrgsiftp.c contains driver routines for gsiftp files. */
/* Andrea Barisani <lcars@si.inaf.it> */
/* Taffoni Giuliano <taffoni@oats.inaf.it> */
#ifdef HAVE_NET_SERVICES
#ifdef HAVE_GSIFTP
#include <sys/types.h>
#include <string.h>
#include... | C | null | 14,210 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/quantize.c | /*
The following code is based on algorithms written by Richard White at STScI and made
available for use in CFITSIO in July 1999 and updated in January 2008.
*/
# include <stdio.h>
# include <stdlib.h>
# include <math.h>
# include <limits.h>
# include <float.h>
#include "fitsio2.h"
/* nearest integer function ... | C | null | 118,885 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/pliocomp.c | /* stdlib is needed for the abs function */
#include <stdlib.h>
/*
The following prototype code was provided by Doug Tody, NRAO, for
performing conversion between pixel arrays and line lists. The
compression technique is used in IRAF.
*/
int pl_p2li (int *pxsrc, int xs, short *lldst, int npix);
int pl_l2pi (s... | C | null | 7,067 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/group.h | #define MAX_HDU_TRACKER 1000
typedef struct _HDUtracker HDUtracker;
struct _HDUtracker
{
int nHDU;
char *filename[MAX_HDU_TRACKER];
int position[MAX_HDU_TRACKER];
char *newFilename[MAX_HDU_TRACKER];
int newPosition[MAX_HDU_TRACKER];
};
/* functions used internally in the grouping convention module */
... | C/C++ Header | null | 2,097 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/imcompress.c | # include <stdio.h>
# include <stdlib.h>
# include <string.h>
# include <math.h>
# include <ctype.h>
# include <time.h>
# include "fitsio2.h"
#define NULL_VALUE -2147483647 /* value used to represent undefined pixels */
#define ZERO_VALUE -2147483646 /* value used to represent zero-valued pixels */
/* nearest integer... | C | null | 381,945 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcol.c | /* This file, putcol.c, contains routines that write data elements to */
/* a FITS image or table. These are the generic routines. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 74,471 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/wcssub.c | #include <stdlib.h>
#include <math.h>
#include <string.h>
#include "fitsio2.h"
/*--------------------------------------------------------------------------*/
int fits_read_wcstab(
fitsfile *fptr, /* I - FITS file pointer */
int nwtb, /* Number of arrays to be read from the binary table(s) */
... | C | null | 35,267 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcolj.c | /* This file, putcolj.c, contains routines that write data elements to */
/* a FITS image or table, with long datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 71,848 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/getcolui.c | /* This file, getcolui.c, contains routines that read data elements from */
/* a FITS image or table, with unsigned short datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* G... | C | null | 75,314 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/getcold.c | /* This file, getcold.c, contains routines that read data elements from */
/* a FITS image or table, with double datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 68,862 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/drvrsmem.c | /* S H A R E D M E M O R Y D R I V E R
=======================================
by Jerzy.Borkowski@obs.unige.ch
09-Mar-98 : initial version 1.0 released
23-Mar-98 : shared_malloc now accepts new handle as an argument
23-Mar-98 : shmem://0, shmem://1, etc changed to sh... | C | null | 38,559 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/drvrfile.c | /* This file, drvrfile.c contains driver routines for disk files. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* Goddard Space Flight Center. */
#inclu... | C | null | 31,822 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcoluj.c | /* This file, putcoluj.c, contains routines that write data elements to */
/* a FITS image or table, with unsigned long datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA *... | C | null | 69,713 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/putcoluk.c | /* This file, putcolk.c, contains routines that write data elements to */
/* a FITS image or table, with 'unsigned int' datatype. */
/* The FITSIO software was written by William Pence at the High Energy */
/* Astrophysic Science Archive Research Center (HEASARC) at the NASA */
/* God... | C | null | 35,867 |
[ascl:2402.002] | https://github.com/asgr/Rfits | src/cfitsio/config/ltmain.sh | #! /usr/bin/env sh
## DO NOT EDIT - This file generated from ./build-aux/ltmain.in
## by inline-source v2019-02-19.15
# libtool (GNU libtool) 2.5.4
# Provide generalized library-building support services.
# Written by Gordon Matzigkeit <gord@gnu.ai.mit.edu>, 1996
# Copyright (C) 1996-2019, 2021-2024 Fre... | Shell | null | 337,554 |
[ascl:2402.002] | https://github.com/asgr/Rfits | tests/testthat.R | library(testthat)
library(Rfits)
test_check("Rfits")
| R | null | 54 |
[ascl:2402.002] | https://github.com/asgr/Rfits | tests/testthat/test_Rfits.R | #load packages
library(Rfits)
library(testthat)
library(FITSio)
#library(tdigest) - ignoring now tdigest is not on CRAN :-(
library(R.utils)
library(bit64)
context("Check Rfits table/image read/write")
#ex 1 check that we read in images like readFITS
file_image = system.file('extdata', 'image.fits', package = "Rfits... | R | null | 13,678 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/zzz.R | .onLoad = function(libname, pkgname){
Rfits_gunzip_clear()
}
| R | null | 63 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_gunzip.R | Rfits_gunzip = function(filename, tempdir=NULL){
assertCharacter(filename, max.len=1)
filename = path.expand(filename)
assertAccess(filename, access='r')
if(grepl('fits.gz$',basename(filename)) | grepl('fit.gz$',basename(filename))){
if(filename %in% options()$Rfits_gunzip[,1]){
filename = options()$R... | R | null | 2,193 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/utility.R | #utility functions
.safedim = function(lo_orig=1L, hi_orig=1L, lo_tar=1L, hi_tar=1L){
len_orig = hi_orig - lo_orig + 1L
len_tar = hi_tar - lo_tar + 1L
out_lo_orig = max(lo_tar, 1L)
out_hi_orig = min(hi_tar, len_orig)
diff = (1L - lo_tar)
out_lo_tar = out_lo_orig + diff
out_hi_tar = out_hi_orig + diff
... | R | null | 722 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_all_hdf5.R | Rfits_read_all_hdf5 = function(filename='temp.h5', header=TRUE, data.table=TRUE){
assertCharacter(filename, max.len=1)
filename = path.expand(filename)
assertLogical(header)
assertFlag(data.table)
file.h5 = hdf5r::H5File$new(filename, mode='a')
extnames = file.h5$names
dataclass = as.character(file.h5$ls... | R | null | 2,666 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_image_hdf5.R | Rfits_read_image_hdf5 = function(filename='temp.h5', extname='data1', ext=NULL, header=TRUE,
xlo=NULL, xhi=NULL, ylo=NULL, yhi=NULL, zlo=NULL, zhi=NULL,
tlo=NULL, thi=NULL, remove_HIERARCH=FALSE, force_logical=FALSE){
if(!requireNamespace("hdf5r", quie... | R | null | 13,140 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_methods_subset.R | `[.Rfits_vector` = function(x, i, header=TRUE){
if(missing(i)){i = c(1,length(x$imDat))}
safedim_i = .safedim(1, length(x$imDat), min(i), max(i))
tar = array(NA, dim=safedim_i$len_tar)
if(safedim_i$safe){
tar[safedim_i$tar] = x$imDat[safedim_i$orig]
}
if(header){
if(!isTRUE(x$keyvalues$Z... | R | null | 31,373 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_header.R | # Access modes when opening a FITS file:
#
# #define READONLY 0
# #define READWRITE 1
#
# BITPIX data type code values for FITS images:
#
# #define BYTE_IMG 8 /* 8-bit unsigned integers */
# #define SHORT_IMG 16 /* 16-bit signed integers */
# #define LONG_IMG 32 /* 32-bit signe... | R | null | 32,777 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/RcppExports.R | # Generated by using Rcpp::compileAttributes() -> do not edit by hand
# Generator token: 10BE3573-1514-4C36-9D1C-5A225CD40393
Cfits_create_header <- function(filename, create_ext = 1L, create_file = 1L) {
invisible(.Call(`_Rfits_Cfits_create_header`, filename, create_ext, create_file))
}
Cfits_read_col <- functio... | R | null | 4,902 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_table_hdf5.R | Rfits_read_table_hdf5 = function(filename='temp.h5', extname='table1', ext=NULL, data.table=TRUE, header=FALSE, remove_HIERARCH=FALSE){
if(requireNamespace("hdf5r", quietly = TRUE)){
file.h5 = hdf5r::H5File$new(filename, mode='a')
output = NULL
try({
if(!is.null(ext)){
extname... | R | null | 4,398 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_methods_bespoke.R | #centre
centre = function(x, useraw=TRUE, ...){
UseMethod("centre", x)
}
centre.Rfits_image = function(x, useraw=TRUE, ...){
if(!inherits(x, c('Rfits_image', 'Rfits_pointer', 'Rfits_header', 'Rfits_keylist'))){
stop('Object class is not of type Rfits_image / Rfits_pointer / Rfits_header / Rfits_keylist')
}
... | R | null | 14,481 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_image.R | # Access modes when opening a FITS file:
#
# #define READONLY 0
# #define READWRITE 1
#
# BITPIX data type code values for FITS images:
#
# #define BYTE_IMG 8 /* 8-bit unsigned integers */
# #define SHORT_IMG 16 /* 16-bit signed integers */
# #define LONG_IMG 32 /* 32-bit signe... | R | null | 42,682 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_point.R | Rfits_point = function(filename='temp.fits', ext=1, header=TRUE, zap=NULL, zaptype='full',
allow_write=FALSE, sparse=1L, scale_sparse=FALSE){
assertCharacter(filename, max.len=1)
filename = path.expand(filename)
assertAccess(filename, access='r')
filename = Rfits_gunzip(filename)
if(is.... | R | null | 1,431 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_methods_file.R | Rfits_centre = function(filename, ext=1, useraw=TRUE, ...){
temp_header = Rfits_read_header(filename=filename, ext=ext)
return(centre(temp_header, useraw=useraw, ...))
}
Rfits_center = Rfits_centre
Rfits_corners = function(filename, ext=1, useraw=TRUE, RAneg=FALSE, ...){
temp_header = Rfits_read_header(filename... | R | null | 1,537 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_methods_operations.R | `&.Rfits_image`=function(e1, e2){
if (missing(e2))
return(e1)
if (inherits(e2, 'Rfits_image')){
e1$imDat = e1$imDat & e2$imDat
}else if (inherits(e2, 'Rfits_pointer')){
e1$imDat = e1$imDat & e2[,]$imDat
}else{
e1$imDat = e1$imDat & e2
}
return(e1)
}
`|.Rfits_image`=function(e1, e2){
i... | R | null | 6,791 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_table.R | # Access modes when opening a FITS file:
#
# #define READONLY 0
# #define READWRITE 1
#
# BITPIX data type code values for FITS images:
#
# #define BYTE_IMG 8 /* 8-bit unsigned integers */
# #define SHORT_IMG 16 /* 16-bit signed integers */
# #define LONG_IMG 32 /* 32-bit signe... | R | null | 12,731 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_methods_base.R | #plotting
plot.Rfits_image = function(x, useraw=TRUE, interactive=FALSE, ...){
if(!inherits(x, 'Rfits_image')){
stop('Object class is not of type Rfits_image!')
}
if(is.null(x$keyvalues$CRVAL1)){
magimage(x$imDat, ...)
}else{
if(requireNamespace("Rwcs", quietly=TRUE)){
if(useraw){header = x$r... | R | null | 10,462 |
[ascl:2402.002] | https://github.com/asgr/Rfits | R/Rfits_all.R | Rfits_read_all=function(filename='temp.fits', pointer='auto', header=TRUE, data.table=TRUE,
anycompress=TRUE, bad=NULL, zap=NULL, zaptype='full', NAcheck = FALSE,
nthreads = 1){
assertCharacter(filename, max.len=1)
filename = path.expand(filename)
filename = Rfits_g... | R | null | 8,878 |
[ascl:2402.002] | https://github.com/asgr/Rfits | .github/workflows/main.yml | # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
push:
pull_request:
branches: [main, master]
name: R-CMD-check
jobs:
R-CMD-check:
runs-on: ${{ matrix.config.os }}
name: $... | YAML | null | 1,633 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | README.md | # rfpipe
A fast radio interferometric transient search library. Extends on [rtpipe](http://github.com/caseyjlaw/rtpipe).
This library supports real-time analysis for the realfast project and offline analysis of VLA data on a single workstation. Integration with the real-time VLA and cluster processing is provided by ... | Markdown | BSD | 2,237 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | .travis.yml | language: python
python:
- 3.6
dist: bionic
branches:
only:
- main
- development
branches:
only:
- main
- development
install:
- sudo apt-get update -y
- sudo apt-get install -y libfftw3-dev libgfortran3 gcc wget
# set up conda
- wget https://repo.continuum.io/miniconda/Miniconda2-lates... | YAML | BSD | 1,829 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | setup.py | #!/usr/bin/env python
# -*- coding: utf-8 -*-
# Note: To use the 'upload' functionality of this file, you must:
# $ pip install twine
import os
import sys
from shutil import rmtree
from setuptools import find_packages, setup, Command
# Package meta-data.
NAME = 'rfpipe'
DESCRIPTION = 'Radio interferometric transi... | Python | BSD | 3,961 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/fileLock.py | ###############################################################################
# lazyflow: data flow based lazy parallel computation framework
#
# Copyright (C) 2011-2014, the ilastik developers
# <team@ilastik.org>
#
# This program is free software; you can redistribute it and/o... | Python | BSD | 8,756 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/state.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import os
import numpy as np
from astropy import time
from rfpipe impo... | Python | BSD | 41,160 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/metadata.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import os.path
import attr
import numpy as np
from scipy import const... | Python | BSD | 21,722 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/version.py | __version__ = '1.6.3'
| Python | BSD | 22 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/source.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
import os.path
import numpy as np
from astropy import time
from rfpipe import fileLock
imp... | Python | BSD | 19,954 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/candidates.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import pickle
import os
from copy import deepcopy
import numpy as np
f... | Python | BSD | 91,657 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/reproduce.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import pickle
import os.path
import numpy as np
from kalman_detector i... | Python | BSD | 31,377 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/flagging.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
import numpy as np
from numba import jit
from rfpipe import util
import logging
logger = ... | Python | BSD | 8,585 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/__init__.py | from __future__ import absolute_import
__all__ = ['state', 'preferences', 'metadata', 'source', 'pipeline', 'reproduce']
# 'candidates', 'flagging', 'calibration', 'util', 'search' # these are slow to import
import logging
logging.basicConfig(level=logging.INFO, format='%(asctime)s - %(name)s - %(levelname... | Python | BSD | 511 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/preferences.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import attr
import yaml
import json
from os import getcwd
from collect... | Python | BSD | 9,432 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/pipeline.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import logging
logger = logging.getLogger(__name__)
logger.setLevel(20... | Python | BSD | 4,019 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/util.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input#, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import numpy as np
import math
import random
from time import sleep
f... | Python | BSD | 35,852 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/search.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input#, str (numba signature bug)
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import numpy as np
from numba import jit, guvec... | Python | BSD | 52,353 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | rfpipe/calibration.py | from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import bytes, dict, object, range, map, input, str
from future.utils import itervalues, viewitems, iteritems, listvalues, listitems
from io import open
import pickle
import numpy as np
import os.path
from collections impor... | Python | BSD | 26,720 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/Reproduce.rst | .. _reproduce:
==========================================
Reproducing realfast Candidate Transients
==========================================
The rfpipe library has been developed for the realfast project, a real-time transient search instrument at the VLA. The realfast project will capture VLA visibility data for c... | reStructuredText | BSD | 2,717 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/Concepts.rst | ===========
Concepts
===========
The standard use case for rfpipe is to read visibility data, prepare it, search it, and save transient radio source information. The search work flow shown below and drives the concepts behind the rfpipe design. (Note references to databases are specific to the realfast system at the V... | reStructuredText | BSD | 429 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/index.rst | .. rfpipe documentation master file, created by
sphinx-quickstart on Tue Apr 18 14:10:24 2017.
You can adapt this file completely to your liking, but it should at least
contain the root `toctree` directive.
rfpipe: radio interferometric transient search library
================================================... | reStructuredText | BSD | 1,181 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/State.rst | .. _state:
==============
Search State
==============
The definition of a search in rfpipe is controlled with a ``State`` object. The state object is passed to many of the core functions that run the search, which then defines how the functions operate (e.g., values of DM to search, memory limits of the computer, num... | reStructuredText | BSD | 4,826 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/Metadata.rst | =========================
Observational Metadata
=========================
Metadata define the properties of the data. Properties such as observing frequency, antenna positions, and time of observation are all metadata defined as the data are recorded.
Metadata are required to interpret the data that is read and to c... | reStructuredText | BSD | 812 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/Preferences.rst | =========================
Search Preferences
=========================
Preferences are a way for a user to define how a transient search for any kind of data/metadata. Preferences have sensible defaults, so the state can be defined even if no preferences are provided.
The most commonly used preferences define the sea... | reStructuredText | BSD | 3,248 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/GettingStarted.rst | ===============
Getting Started
===============
.. _installation:
Installation
==============
Rfpipe requires the `anaconda installer <https://conda.io/docs/user-guide/install/download.html>`_. The installation usually works best by adding two channels to find dependencies. To install rfpipe, try the following::
... | reStructuredText | BSD | 2,592 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/Simulating.rst | .. _simulating:
=============================
Finding Simulated Transients
=============================
It is useful to simulate transients for testing purposes. This is done by defining parameters of a set of transient in the ``Preferences``. The ``simulated_transient`` preference expects a list of tuples defined a... | reStructuredText | BSD | 2,557 |
[ascl:1710.002] | https://github.com/realfastvla/rfpipe | docs/Candidates.rst | ==============
Candidates
==============
.. _candcollection:
CandCollection
================
The search functions (or the pipeline) will return objects that summarize the candidates detected. The goal of the search process is to reduce the data volume (e.g., the TB per hour of visibilities) into a manageable summary... | reStructuredText | BSD | 2,624 |
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