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ensembl-gh-mirror
zmap
Commits
cc02d983
Commit
cc02d983
authored
16 years ago
by
edgrif
Browse files
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Plain Diff
Fix connect and destroy func return codes, fix err_msg memory leak
parent
3a8aaf81
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1 changed file
src/zmapServer/acedb/acedbServer.c
+71
-59
71 additions, 59 deletions
src/zmapServer/acedb/acedbServer.c
with
71 additions
and
59 deletions
src/zmapServer/acedb/acedbServer.c
+
71
−
59
View file @
cc02d983
...
...
@@ -27,9 +27,9 @@
*
* Exported functions: See zmapServer.h
* HISTORY:
* Last edited:
Nov 6 09:04
2008 (edgrif)
* Last edited:
Dec 4 16:46
2008 (edgrif)
* Created: Wed Aug 6 15:46:38 2003 (edgrif)
* CVS info: $Id: acedbServer.c,v 1.11
6
2008-1
1-12 17:40:30
edgrif Exp $
* CVS info: $Id: acedbServer.c,v 1.11
7
2008-1
2-05 09:16:12
edgrif Exp $
*-------------------------------------------------------------------
*/
...
...
@@ -141,7 +141,7 @@ static ZMapServerResponseType getFeatures(void *server_in, ZMapFeatureContext fe
static
ZMapServerResponseType
getContextSequence
(
void
*
server_in
,
ZMapFeatureContext
feature_context_out
)
;
static
char
*
lastErrorMsg
(
void
*
server
)
;
static
ZMapServerResponseType
closeConnection
(
void
*
server_in
)
;
static
gboolean
destroyConnection
(
void
*
server
)
;
static
ZMapServerResponseType
destroyConnection
(
void
*
server
)
;
/* general internal routines. */
...
...
@@ -196,6 +196,10 @@ static gboolean getServerInfo(AcedbServer server, char **database_path_out) ;
static
gboolean
equaliseLists
(
GList
**
feature_sets_inout
,
GList
*
method_names
,
char
**
missing_methods_str_out
)
;
static
gint
quarkCaseCmp
(
gconstpointer
a
,
gconstpointer
b
)
;
static
void
setErrMsg
(
AcedbServer
server
,
char
*
new_msg
)
;
...
...
@@ -936,21 +940,19 @@ char *lastErrorMsg(void *server_in)
static
ZMapServerResponseType
closeConnection
(
void
*
server_in
)
{
gboolean
result
=
TRUE
;
ZMapServerResponseType
result
=
ZMAP_SERVERRESPONSE_REQFAIL
;
AcedbServer
server
=
(
AcedbServer
)
server_in
;
if
((
server
->
last_err_status
=
AceConnConnectionOpen
(
server
->
connection
))
==
ACECONN_OK
)
{
if
((
server
->
last_err_status
=
AceConnDisconnect
(
server
->
connection
))
!=
ACECONN_OK
)
result
=
FALSE
;
}
if
((
server
->
last_err_status
=
AceConnConnectionOpen
(
server
->
connection
))
==
ACECONN_OK
&&
(
server
->
last_err_status
=
AceConnDisconnect
(
server
->
connection
))
==
ACECONN_OK
)
result
=
ZMAP_SERVERRESPONSE_OK
;
return
result
;
}
static
gboolean
destroyConnection
(
void
*
server_in
)
static
ZMapServerResponseType
destroyConnection
(
void
*
server_in
)
{
gboolean
result
=
TRUE
;
ZMapServerResponseType
result
=
ZMAP_SERVERRESPONSE_OK
;
AcedbServer
server
=
(
AcedbServer
)
server_in
;
AceConnDestroy
(
server
->
connection
)
;
/* Does not fail. */
...
...
@@ -1155,8 +1157,8 @@ static gboolean sequenceRequest(AcedbServer server, ZMapFeatureBlock feature_blo
* end, if next_line is empty then its reached the end. */
if
(
*
next_line
)
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Request from server contained incomplete line: %s"
,
next_line
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Request from server contained incomplete line: %s"
,
next_line
)
)
;
if
(
!
first_error
)
first_error
=
next_line
;
/* Remember first line for later error
message.*/
...
...
@@ -1164,10 +1166,10 @@ static gboolean sequenceRequest(AcedbServer server, ZMapFeatureBlock feature_blo
else
{
if
(
first_error
)
se
rver
->
last_err_msg
=
g_strdup_printf
(
"No GFF found in server reply,"
"but did find:
\"
%s
\"
"
,
first_error
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"No GFF found in server reply,"
"but did find:
\"
%s
\"
"
,
first_error
)
)
;
else
se
rver
->
last_err_msg
=
g_strdup_printf
(
"%s"
,
"No GFF found in server reply."
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"%s"
,
"No GFF found in server reply."
)
)
;
}
ZMAPSERVER_LOG
(
Critical
,
ACEDB_PROTOCOL_STR
,
server
->
host
,
...
...
@@ -1185,22 +1187,22 @@ static gboolean sequenceRequest(AcedbServer server, ZMapFeatureBlock feature_blo
{
if
(
g_str_has_prefix
((
char
*
)
next_line
,
"// ERROR"
))
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Error fetching features: %s"
,
next_line
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Error fetching features: %s"
,
next_line
)
)
;
ZMAPSERVER_LOG
(
Warning
,
ACEDB_PROTOCOL_STR
,
server
->
host
,
"%s"
,
server
->
last_err_msg
)
;
}
else
if
(
g_str_has_prefix
((
char
*
)
next_line
,
"//"
))
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Information from server: %s"
,
next_line
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Information from server: %s"
,
next_line
)
)
;
ZMAPSERVER_LOG
(
Message
,
ACEDB_PROTOCOL_STR
,
server
->
host
,
"%s"
,
server
->
last_err_msg
)
;
}
else
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Bad GFF line: %s"
,
next_line
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Bad GFF line: %s"
,
next_line
)
)
;
ZMAPSERVER_LOG
(
Critical
,
ACEDB_PROTOCOL_STR
,
server
->
host
,
"%s"
,
server
->
last_err_msg
)
;
}
...
...
@@ -1242,9 +1244,9 @@ static gboolean sequenceRequest(AcedbServer server, ZMapFeatureBlock feature_blo
if
(
!
error
)
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"zMapGFFParseLine() failed with no GError for line %d: %s"
,
zMapGFFGetLineNumber
(
parser
),
next_line
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"zMapGFFParseLine() failed with no GError for line %d: %s"
,
zMapGFFGetLineNumber
(
parser
),
next_line
)
)
;
ZMAPSERVER_LOG
(
Critical
,
ACEDB_PROTOCOL_STR
,
server
->
host
,
"%s"
,
server
->
last_err_msg
)
;
...
...
@@ -1257,7 +1259,7 @@ static gboolean sequenceRequest(AcedbServer server, ZMapFeatureBlock feature_blo
if
(
zMapGFFTerminated
(
parser
))
{
result
=
FALSE
;
se
rver
->
last_err_msg
=
g_strdup_printf
(
"%s"
,
error
->
message
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"%s"
,
error
->
message
)
)
;
}
else
{
...
...
@@ -1275,8 +1277,8 @@ static gboolean sequenceRequest(AcedbServer server, ZMapFeatureBlock feature_blo
* end, if next_line is empty then its reached the end. */
if
(
*
next_line
)
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Request from server contained incomplete line: %s"
,
next_line
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Request from server contained incomplete line: %s"
,
next_line
)
)
;
ZMAPSERVER_LOG
(
Critical
,
ACEDB_PROTOCOL_STR
,
server
->
host
,
"%s"
,
server
->
last_err_msg
)
;
}
...
...
@@ -1440,11 +1442,11 @@ static gboolean getDNARequest(AcedbServer server, char *sequence_name, int start
{
if
((
reply_len
-
1
)
!=
((
dna_length
=
end
-
start
+
1
)))
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"DNA request failed (
\"
%s
\"
), "
"expected dna length: %d "
"returned length: %d"
,
acedb_request
,
dna_length
,
(
reply_len
-
1
))
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"DNA request failed (
\"
%s
\"
), "
"expected dna length: %d "
"returned length: %d"
,
acedb_request
,
dna_length
,
(
reply_len
-
1
))
)
;
result
=
FALSE
;
}
else
...
...
@@ -1574,9 +1576,9 @@ static gboolean getSMapping(AcedbServer server, char *class,
* in our case if the reply starts with acedb comment chars, this means trouble.. */
if
(
g_str_has_prefix
(
reply_text
,
"//"
))
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"SMap request failed, "
"request:
\"
%s
\"
, "
"reply:
\"
%s
\"
"
,
acedb_request
,
reply_text
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"SMap request failed, "
"request:
\"
%s
\"
, "
"reply:
\"
%s
\"
"
,
acedb_request
,
reply_text
)
)
;
result
=
FALSE
;
}
else
...
...
@@ -1594,9 +1596,9 @@ static gboolean getSMapping(AcedbServer server, char *class,
&
child_to_parent
.
c1
,
&
child_to_parent
.
c2
,
&
status
[
0
]))
!=
FIELD_NUM
)
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Could not parse smap data, "
"request:
\"
%s
\"
, "
"reply:
\"
%s
\"
"
,
acedb_request
,
reply_text
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Could not parse smap data, "
"request:
\"
%s
\"
, "
"reply:
\"
%s
\"
"
,
acedb_request
,
reply_text
)
)
;
result
=
FALSE
;
}
else
...
...
@@ -1666,9 +1668,9 @@ static gboolean getSMapLength(AcedbServer server, char *obj_class, char *obj_nam
* in our case if the reply starts with acedb comment chars, this means trouble.. */
if
(
g_str_has_prefix
(
reply_text
,
"//"
))
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"%s request failed, "
"request:
\"
%s
\"
, "
"reply:
\"
%s
\"
"
,
command
,
acedb_request
,
reply_text
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"%s request failed, "
"request:
\"
%s
\"
, "
"reply:
\"
%s
\"
"
,
command
,
acedb_request
,
reply_text
)
)
;
result
=
FALSE
;
}
else
...
...
@@ -1682,9 +1684,9 @@ static gboolean getSMapLength(AcedbServer server, char *obj_class, char *obj_nam
if
((
fields
=
sscanf
(
reply_text
,
format_str
,
&
obj_class_name
[
0
],
&
length
))
!=
FIELD_NUM
)
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Could not parse smap data, "
"request:
\"
%s
\"
, "
"reply:
\"
%s
\"
"
,
acedb_request
,
reply_text
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Could not parse smap data, "
"request:
\"
%s
\"
, "
"reply:
\"
%s
\"
"
,
acedb_request
,
reply_text
)
)
;
result
=
FALSE
;
}
else
...
...
@@ -1759,9 +1761,9 @@ static gboolean checkServerVersion(AcedbServer server)
next
=
strtok
(
NULL
,
" "
)
;
if
(
!
(
result
=
zMapCompareVersionStings
(
server
->
version_str
,
next
)))
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Server version must be at least %s "
"but this server is %s."
,
server
->
version_str
,
next
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Server version must be at least %s "
"but this server is %s."
,
server
->
version_str
,
next
)
)
;
break
;
}
}
...
...
@@ -1825,9 +1827,9 @@ static gboolean findSequence(AcedbServer server, char *sequence_name)
if
(
num_obj
==
1
)
result
=
TRUE
;
else
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Expected to find
\"
1
\"
sequence object with name %s, "
"but found %d objects."
,
sequence_name
,
num_obj
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Expected to find
\"
1
\"
sequence object with name %s, "
"but found %d objects."
,
sequence_name
,
num_obj
)
)
;
break
;
}
}
...
...
@@ -1939,7 +1941,7 @@ static gboolean getServerInfo(AcedbServer server, char **database_path_out)
*
database_path_out
=
g_strdup
(
target
)
;
}
else
se
rver
->
last_err_msg
=
g_strdup
(
"No directory name after
\"
Directory
\"
in acedb response."
)
;
se
tErrMsg
(
server
,
g_strdup
(
"No directory name after
\"
Directory
\"
in acedb response."
)
)
;
break
;
}
...
...
@@ -2058,7 +2060,7 @@ static gboolean parseTypes(AcedbServer server, GData **types_out,
{
result
=
FALSE
;
se
rver
->
last_err_msg
=
g_strdup
(
"Styles found on server but they could not be parsed, check the log."
)
;
se
tErrMsg
(
server
,
g_strdup
(
"Styles found on server but they could not be parsed, check the log."
)
)
;
}
else
{
...
...
@@ -2149,8 +2151,8 @@ static ZMapServerResponseType findMethods(AcedbServer server, char *search_str,
result
=
ZMAP_SERVERRESPONSE_OK
;
}
else
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Expected to find %s objects but found none."
,
(
server
->
acedb_styles
?
"ZMap_style"
:
"Method"
))
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Expected to find %s objects but found none."
,
(
server
->
acedb_styles
?
"ZMap_style"
:
"Method"
))
)
;
break
;
}
}
...
...
@@ -3506,7 +3508,7 @@ static ZMapServerResponseType getObjNames(AcedbServer server, GList **style_name
}
else
{
se
rver
->
last_err_msg
=
g_strdup_printf
(
"No styles found."
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"No styles found."
)
)
;
result
=
ZMAP_SERVERRESPONSE_REQFAIL
;
}
...
...
@@ -3815,9 +3817,9 @@ static ZMapServerResponseType doGetSequences(AcedbServer server, GList *sequence
if
(
num_objs
==
1
)
result
=
ZMAP_SERVERRESPONSE_OK
;
else
se
rver
->
last_err_msg
=
g_strdup_printf
(
"Expected to find 1 sequence object"
"named
\"
%s
\"
but found %d."
,
g_quark_to_string
(
sequence
->
name
),
num_objs
)
;
se
tErrMsg
(
server
,
g_strdup_printf
(
"Expected to find 1 sequence object"
"named
\"
%s
\"
but found %d."
,
g_quark_to_string
(
sequence
->
name
),
num_objs
)
)
;
break
;
}
}
...
...
@@ -3908,6 +3910,16 @@ static gint quarkCaseCmp(gconstpointer a, gconstpointer b)
}
/* It's possible for us to have reported an error and then another error to come along. */
static
void
setErrMsg
(
AcedbServer
server
,
char
*
new_msg
)
{
if
(
server
->
last_err_msg
)
g_free
(
server
->
last_err_msg
)
;
server
->
last_err_msg
=
new_msg
;
return
;
}
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