2 db_start <- function() {
3 drv <- dbDriver('SQLite')
4 if (is.null(drv)) stop("db_start: Could not access driver for SQLite.\n")
5 con <- dbConnect(drv, dbname=file.path(cache_root,'cran2deb.db'))
6 if (is.null(con)) stop("db_start: Could open connection to file 'cran2deb.db' in directory",cache_root,".\n")
7 if (!dbExistsTable(con,'sysreq_override')) {
8 dbGetQuery(con,paste('CREATE TABLE sysreq_override ('
9 ,' depend_alias TEXT NOT NULL'
10 ,',r_pattern TEXT PRIMARY KEY NOT NULL'
13 if (!dbExistsTable(con,'debian_dependency')) {
14 dbGetQuery(con,paste('CREATE TABLE debian_dependency ('
15 ,' id INTEGER PRIMARY KEY AUTOINCREMENT NOT NULL'
16 ,',alias TEXT NOT NULL'
17 ,',build INTEGER NOT NULL'
18 ,',debian_pkg TEXT NOT NULL'
19 ,',UNIQUE (alias,build,debian_pkg)'
22 if (!dbExistsTable(con,'forced_depends')) {
23 dbGetQuery(con,paste('CREATE TABLE forced_depends ('
24 ,' r_name TEXT NOT NULL'
25 ,',depend_alias TEXT NOT NULL'
26 ,',PRIMARY KEY (r_name,depend_alias)'
29 if (!dbExistsTable(con,'license_override')) {
30 dbGetQuery(con,paste('CREATE TABLE license_override ('
31 ,' name TEXT PRIMARY KEY NOT NULL'
32 ,',accept INT NOT NULL'
35 if (!dbExistsTable(con,'license_hashes')) {
36 dbGetQuery(con,paste('CREATE TABLE license_hashes ('
37 ,' name TEXT NOT NULL'
38 ,',sha1 TEXT PRIMARY KEY NOT NULL'
41 if (!dbExistsTable(con,'database_versions')) {
42 dbGetQuery(con,paste('CREATE TABLE database_versions ('
43 ,' version INTEGER PRIMARY KEY AUTOINCREMENT NOT NULL'
44 ,',version_date INTEGER NOT NULL'
45 ,',base_epoch INTEGER NOT NULL'
47 db_add_version(con,1,0)
49 if (!dbExistsTable(con,'packages')) {
50 dbGetQuery(con,paste('CREATE TABLE packages ('
51 ,' package TEXT PRIMARY KEY NOT NULL'
52 ,',latest_r_version TEXT'
55 if (!dbExistsTable(con,'builds')) {
56 dbGetQuery(con,paste('CREATE TABLE builds ('
57 ,' id INTEGER PRIMARY KEY AUTOINCREMENT NOT NULL'
58 ,',system TEXT NOT NULL'
59 ,',package TEXT NOT NULL'
60 ,',r_version TEXT NOT NULL'
61 ,',deb_epoch INTEGER NOT NULL'
62 ,',deb_revision INTEGER NOT NULL'
63 ,',db_version INTEGER NOT NULL'
64 ,',date_stamp TEXT NOT NULL'
65 ,',time_stamp TEXT NOT NULL'
66 ,',scm_revision TEXT NOT NULL'
67 ,',success INTEGER NOT NULL'
69 ,',UNIQUE(package,system,r_version,deb_epoch,deb_revision,db_version)'
72 if (!dbExistsTable(con,'blacklist_packages')) {
73 dbGetQuery(con,paste('CREATE TABLE blacklist_packages ('
74 ,' package TEXT PRIMARY KEY NOT NULL '
75 ,',nonfree INTEGER NOT NULL DEFAULT 0'
76 ,',obsolete INTEGER NOT NULL DEFAULT 0'
77 ,',broken_dependency INTEGER NOT NULL DEFAULT 0'
78 ,',unsatisfied_dependency INTEGER NOT NULL DEFAULT 0'
79 ,',breaks_cran2deb INTEGER NOT NULL DEFAULT 0'
80 ,',other INTEGER NOT NULL DEFAULT 0'
81 ,',explanation TEXT NOT NULL '
87 db_stop <- function(con,bump=F) {
94 db_quote <- function(text) {
95 return(paste('\'', gsub('([\'"])','\\1\\1',text),'\'',sep=''))
98 db_now <- function() {
99 return(as.integer(gsub('-','',Sys.Date())))
102 db_cur_version <- function(con) {
103 return(as.integer(dbGetQuery(con, 'SELECT max(version) FROM database_versions')[[1]]))
106 db_base_epoch <- function(con) {
107 return(as.integer(dbGetQuery(con,
108 paste('SELECT max(base_epoch) FROM database_versions'
109 ,'WHERE version IN (SELECT max(version) FROM database_versions)'))[[1]]))
112 db_get_base_epoch <- function() {
114 v <- db_base_epoch(con)
119 db_get_version <- function() {
121 v <- db_cur_version(con)
126 db_add_version <- function(con, version, epoch) {
127 dbGetQuery(con,paste('INSERT INTO database_versions (version,version_date,base_epoch)'
128 ,'VALUES (',as.integer(version),',',db_now(),',',as.integer(epoch),')'))
131 db_bump <- function(con) {
132 db_add_version(con,db_cur_version(con)+1, db_base_epoch(con))
135 db_bump_epoch <- function(con) {
136 db_add_version(con,db_cur_version(con)+1, db_base_epoch(con)+1)
139 db_sysreq_override <- function(sysreq_text) {
141 results <- dbGetQuery(con,paste(
142 'SELECT DISTINCT depend_alias FROM sysreq_override WHERE'
143 ,db_quote(tolower(sysreq_text)),'LIKE r_pattern'))
145 if (length(results) == 0) {
148 return(results$depend_alias)
151 db_add_sysreq_override <- function(pattern,depend_alias) {
153 results <- dbGetQuery(con,paste(
154 'INSERT OR REPLACE INTO sysreq_override'
155 ,'(depend_alias, r_pattern) VALUES ('
156 ,' ',db_quote(tolower(depend_alias))
157 ,',',db_quote(tolower(pattern))
162 db_sysreq_overrides <- function() {
164 overrides <- dbGetQuery(con,paste('SELECT * FROM sysreq_override'))
169 db_get_depends <- function(depend_alias,build=F) {
171 results <- dbGetQuery(con,paste(
172 'SELECT DISTINCT debian_pkg FROM debian_dependency WHERE'
173 ,db_quote(tolower(depend_alias)),'= alias'
174 ,'AND',as.integer(build),'= build'))
176 return(results$debian_pkg)
179 db_add_depends <- function(depend_alias,debian_pkg,build=F) {
181 results <- dbGetQuery(con,paste(
182 'INSERT OR REPLACE INTO debian_dependency'
183 ,'(alias, build, debian_pkg) VALUES ('
184 ,' ',db_quote(tolower(depend_alias))
185 ,',',as.integer(build)
186 ,',',db_quote(tolower(debian_pkg))
191 db_depends <- function() {
193 depends <- dbGetQuery(con,paste('SELECT * FROM debian_dependency'))
198 db_get_forced_depends <- function(r_name) {
200 forced_depends <- dbGetQuery(con,
201 paste('SELECT depend_alias FROM forced_depends WHERE'
202 ,db_quote(r_name),'= r_name'))
204 return(forced_depends$depend_alias)
207 db_add_forced_depends <- function(r_name, depend_alias) {
208 if (!length(db_get_depends(depend_alias,build=F)) &&
209 !length(db_get_depends(depend_alias,build=T))) {
210 fail('Debian dependency alias',depend_alias,'is not know,'
211 ,'yet trying to force a dependency on it?')
215 paste('INSERT OR REPLACE INTO forced_depends (r_name, depend_alias)'
216 ,'VALUES (',db_quote(r_name),',',db_quote(depend_alias),')'))
220 db_forced_depends <- function() {
222 depends <- dbGetQuery(con,paste('SELECT * FROM forced_depends'))
227 db_license_override_name <- function(name) {
229 results <- dbGetQuery(con,paste(
230 'SELECT DISTINCT accept FROM license_override WHERE'
231 ,db_quote(tolower(name)),'= name'))
233 if (length(results) == 0) {
236 return(as.logical(results$accept))
239 db_add_license_override <- function(name,accept) {
240 notice('adding',name,'accept?',accept)
241 if (accept != TRUE && accept != FALSE) {
242 fail('accept must be TRUE or FALSE')
245 results <- dbGetQuery(con,paste(
246 'INSERT OR REPLACE INTO license_override'
247 ,'(name, accept) VALUES ('
248 ,' ',db_quote(tolower(name))
249 ,',',as.integer(accept)
254 db_license_override_hash <- function(license_sha1) {
256 results <- dbGetQuery(con,paste(
257 'SELECT DISTINCT accept FROM license_override'
258 ,'INNER JOIN license_hashes'
259 ,'ON license_hashes.name = license_override.name WHERE'
260 ,db_quote(tolower(license_sha1)),'= license_hashes.sha1'))
262 if (length(results) == 0) {
265 return(as.logical(results$accept))
268 db_license_overrides <- function() {
270 overrides <- dbGetQuery(con,paste('SELECT * FROM license_override'))
271 hashes <- dbGetQuery(con,paste('SELECT * FROM license_hashes'))
273 return(list(overrides=overrides,hashes=hashes))
276 db_add_license_hash <- function(name,license_sha1) {
277 if (is.null(db_license_override_name(name))) {
278 fail('license',name,'is not know, yet trying to add a hash for it?')
280 notice('adding hash',license_sha1,'for',name)
282 dbGetQuery(con,paste(
283 'INSERT OR REPLACE INTO license_hashes'
284 ,'(name, sha1) VALUES ('
285 ,' ',db_quote(tolower(name))
286 ,',',db_quote(tolower(license_sha1))
292 db_update_package_versions <- function() {
293 # seems like the quickest way of doing this:
295 dbGetQuery(con, 'DROP TABLE packages')
297 # db_start re-makes all tables
299 for (package in available[,'Package']) {
300 dbGetQuery(con, paste('INSERT OR REPLACE INTO packages (package,latest_r_version)'
301 ,'VALUES (',db_quote(package)
302 ,',',db_quote(available[package,'Version']),')'))
304 dbGetQuery(con,'DELETE FROM builds WHERE builds.package NOT IN (SELECT package FROM packages)')
308 db_date_format <- '%Y-%m-%d'
309 db_time_format <- '%H:%M:%OS'
311 db_record_build <- function(package, deb_version, log, success=F) {
312 # if the log is more than 1kB, only keep the last 1kB.
313 # this is to work around a problem that seems to have appeared in R 2.10 causing calloc errors.
314 # if the log is not pruned then we get the following error:
316 # Error in gsub("(['\"])", "\\1\\1", text) :
317 # Calloc could not allocate (-197080581 of 1) memory
318 # Error in dbGetQuery(con, paste("INSERT OR REPLACE INTO builds", "(package,system,r_version,deb_epoch,deb_revision,db_version,success,date_stamp,time_stamp,scm_revision,log)", :
319 # error in evaluating the argument 'statement' in selecting a method for function 'dbGetQuery'
321 log <- paste(log,collapse='\n')
324 if (end > max_log_len) {
325 log <- db_quote(substr(log,end-max_log_len,end))
330 o <- options(digits.secs = 6)
331 sqlcmd <- paste('INSERT OR REPLACE INTO builds'
332 ,'(package,system,r_version,deb_epoch,deb_revision,db_version,success,date_stamp,time_stamp,scm_revision,log)'
334 ,'(',db_quote(package)
335 ,',',db_quote(which_system)
336 ,',',db_quote(version_upstream(deb_version))
337 ,',',db_quote(version_epoch(deb_version))
338 ,',',db_quote(version_revision(deb_version))
339 ,',',db_cur_version(con)
340 ,',',as.integer(success)
341 ,',',db_quote(format(Sys.time(), db_date_format))
342 ,',',db_quote(format(Sys.time(), db_time_format))
343 ,',',db_quote(scm_revision)
347 try(dbGetQuery(con,sqlcmd))
352 db_builds <- function(pkgname) {
353 # returns all successful builds
355 build <- dbGetQuery(con, paste('SELECT * FROM builds'
357 ,'AND system =',db_quote(which_system)
358 ,'AND package =',db_quote(pkgname)))
360 if (length(build) == 0) {
363 return(db_cleanup_builds(build))
366 db_cleanup_builds <- function(build,verbose=FALSE) {
367 build$success <- as.logical(build$success)
368 #o <-options(digits.secs = 6)
369 dt <- as.POSIXct(strptime(paste(as.character(build[,"date_stamp"]), as.character(build[,"time_stamp"])),
370 paste(db_date_format, db_time_format)))
371 build$time_stamp <- NULL
372 build$date_stamp <- NULL
373 newdf <- data.frame(build, date_stamp=dt)
375 cat("db_cleanup_builds: newdf")
378 #print(newdf[, -grep("log", colnames(newdf))])
380 #print(newdf[, -grep("log", colnames(newdf))])
384 db_latest_build <- function(pkgname,verbose=FALSE,debug=FALSE) {
385 if (verbose) {cat("db_latest_build: pkgname:",pkgname,"\n")}
388 cat(" connection was opened\n")
390 build <- dbGetQuery(con, paste('SELECT * FROM builds'
391 ,'NATURAL JOIN (SELECT package,max(id) AS max_id FROM builds'
392 , 'WHERE system =',db_quote(which_system)
393 , 'GROUP BY package) AS last'
395 ,'AND builds.package =',db_quote(pkgname)))
397 cat(" dbGetQuery was executed:\n")
398 cat(" print(build):\n")
403 cat(" connection was closed\n")
405 if (length(build) == 0) {
407 } else if (0 == nrow(build)) {
410 return(db_cleanup_builds(build))
413 db_latest_build_version <- function(pkgname,verbose=FALSE) {
414 if (verbose) {cat("db_latest_build_version: pkgname:",pkgname,"\n")}
415 build <- db_latest_build(pkgname)
416 if (is.null(build)) {
418 } else if (0 == nrow(build)) {
421 return(version_new(build$r_version, build$deb_revision, build$deb_epoch))
424 db_latest_build_status <- function(pkgname,verbose=FALSE) {
425 if (verbose) {cat("db_latest_build_status: pkgname:",pkgname,"\n")}
426 build <- db_latest_build(pkgname)
427 if (is.null(build)) {
429 } else if (0 == nrow(build)) {
432 return(list(build$success,build$log))
435 db_outdated_packages <- function() {
437 packages <- dbGetQuery(con,paste('SELECT packages.package FROM packages'
439 # extract the latest attempt at building each package
440 , 'SELECT * FROM builds'
441 , 'NATURAL JOIN (SELECT package,max(id) AS max_id FROM builds'
442 , 'WHERE system =',db_quote(which_system)
443 , 'GROUP BY package) AS last'
444 , 'WHERE id = max_id) AS build'
445 ,'ON build.package = packages.package'
447 # - there is no latest build
448 ,'WHERE build.package IS NULL'
449 # - the database has changed since last build
450 ,'OR build.db_version < (SELECT max(version) FROM database_versions)'
451 # - the debian epoch has been bumped up
452 ,'OR build.deb_epoch < (SELECT max(base_epoch) FROM database_versions'
453 , 'WHERE version IN ('
454 , 'SELECT max(version) FROM database_versions))'
455 # - the latest build is not of the latest R version
456 ,'OR build.r_version != packages.latest_r_version'
462 db_blacklist_packages <- function() {
464 packages <- dbGetQuery(con,'SELECT package from blacklist_packages')$package
469 db_blacklist_reasons <- function () {
471 packages <- dbGetQuery(con,'SELECT package,explanation from blacklist_packages group by explanation')
476 db_todays_builds <- function() {
477 today <- db_quote(format(Sys.time(), db_date_format))
479 builds <- dbGetQuery(con,paste('select id,success,system,package,
480 r_version as version,deb_epoch as epo,
481 deb_revision as rev, scm_revision as svnrev,
482 db_version as db,date_stamp,time_stamp
483 from builds where date_stamp = ',today))
488 db_successful_builds <- function() {
490 builds <- dbGetQuery(con,'select system,package,r_version,date_stamp,time_stamp
491 from builds natural join (select system,package,max(id) as id
494 (select package from blacklist_packages)
495 group by package,system)
501 db_failed_builds <- function() {
503 builds <- dbGetQuery(con,'select system,package,r_version,date_stamp,time_stamp
504 from builds natural join (select system,package,max(id) as id
507 (select package from blacklist_packages)
508 group by package,system)