/**
* Attempt to filter a bitstream
*
* <p>An exception will be thrown if the media filter class cannot be instantiated, exceptions
* from filtering will be logged to STDOUT and swallowed.
*
* @return true if bitstream processed, false if no applicable filter or already processed
*/
public static boolean filterBitstream(Context c, Item myItem, Bitstream myBitstream)
throws Exception {
boolean filtered = false;
// iterate through filter classes. A single format may be actioned
// by more than one filter
for (int i = 0; i < filterClasses.length; i++) {
List fmts = (List) filterFormats.get(filterClasses[i].getClass().getName());
if (fmts.contains(myBitstream.getFormat().getShortDescription())) {
try {
// only update item if bitstream not skipped
if (filterClasses[i].processBitstream(c, myItem, myBitstream)) {
myItem.update(); // Make sure new bitstream has a sequence
// number
filtered = true;
}
} catch (Exception e) {
System.out.println(
"ERROR filtering, skipping bitstream #" + myBitstream.getID() + " " + e);
e.printStackTrace();
}
}
}
return filtered;
}
/**
* For a bitstream that's a thumbnail or extracted text, find the corresponding bitstream it was
* derived from, in the ORIGINAL bundle.
*
* @param item the item we're dealing with
* @param derived the derived bitstream
* @return the corresponding original bitstream (or null)
*/
protected static Bitstream findOriginalBitstream(Item item, Bitstream derived)
throws SQLException {
Bundle[] bundles = item.getBundles();
// Filename of original will be filename of the derived bitstream
// minus the extension (last 4 chars - .jpg or .txt)
String originalFilename = derived.getName().substring(0, derived.getName().length() - 4);
// First find "original" bundle
for (int i = 0; i < bundles.length; i++) {
if ((bundles[i].getName() != null) && bundles[i].getName().equals("ORIGINAL")) {
// Now find the corresponding bitstream
Bitstream[] bitstreams = bundles[i].getBitstreams();
for (int bsnum = 0; bsnum < bitstreams.length; bsnum++) {
if (bitstreams[bsnum].getName().equals(originalFilename)) {
return bitstreams[bsnum];
}
}
}
}
// Didn't find it
return null;
}
/**
* Remove a file from an item
*
* @param context current DSpace context
* @param item Item where file should be removed from
* @param bitstreamID The id of bitstream representing the file to remove
* @return Status or error flag which will be processed by UI-related code! (if STATUS_COMPLETE or
* 0 is returned, no errors occurred!)
*/
protected int processRemoveFile(Context context, Item item, int bitstreamID)
throws IOException, SQLException, AuthorizeException {
Bitstream bitstream;
// Try to find bitstream
try {
bitstream = Bitstream.find(context, bitstreamID);
} catch (NumberFormatException nfe) {
bitstream = null;
}
if (bitstream == null) {
// Invalid or mangled bitstream ID
// throw an error and return immediately
return STATUS_INTEGRITY_ERROR;
}
// remove bitstream from bundle..
// delete bundle if it's now empty
Bundle[] bundles = bitstream.getBundles();
bundles[0].removeBitstream(bitstream);
Bitstream[] bitstreams = bundles[0].getBitstreams();
// remove bundle if it's now empty
if (bitstreams.length < 1) {
item.removeBundle(bundles[0]);
item.update();
}
// no errors occurred
return STATUS_COMPLETE;
}
/**
* Return this resource's children. Item's children are its bitstreams.
*
* @return the DAV resource[]
* @throws SQLException the SQL exception
*/
@Override
protected DAVResource[] children() throws SQLException {
// Check for overall read permission on Item
if (!AuthorizeManager.authorizeActionBoolean(this.context, this.item, Constants.READ)) {
return new DAVResource[0];
}
Vector result = new Vector();
Bundle[] bundles = this.item.getBundles();
for (Bundle element : bundles) {
// check read permission on this Bundle
if (!AuthorizeManager.authorizeActionBoolean(this.context, element, Constants.READ)) {
continue;
}
Bitstream[] bitstreams = element.getBitstreams();
for (Bitstream element0 : bitstreams) {
String ext[] = element0.getFormat().getExtensions();
result.add(
new DAVBitstream(
this.context,
this.request,
this.response,
makeChildPath(
DAVBitstream.getPathElt(
element0.getSequenceID(), ext.length < 1 ? null : ext[0])),
this.item,
element0));
}
}
return (DAVResource[]) result.toArray(new DAVResource[result.size()]);
}
private void populateEntry(Context context, Entry entry, Bitstream bitstream)
throws DSpaceSwordException {
BitstreamFormat format = bitstream.getFormat();
String contentType = null;
if (format != null) {
contentType = format.getMIMEType();
}
SwordUrlManager urlManager = new SwordUrlManager(new SwordConfigurationDSpace(), context);
String bsUrl = urlManager.getBitstreamUrl(bitstream);
entry.setId(bsUrl);
entry.setTitle(bitstream.getName());
String desc = bitstream.getDescription();
if ("".equals(desc) || desc == null) {
desc = bitstream.getName();
}
entry.setSummary(desc);
entry.setUpdated(new Date()); // required, though content is spurious
// add an edit-media link for the bitstream ...
Abdera abdera = new Abdera();
Link link = abdera.getFactory().newLink();
link.setHref(urlManager.getActionableBitstreamUrl(bitstream));
link.setMimeType(contentType);
link.setRel("edit-media");
entry.addLink(link);
// set the content of the bitstream
entry.setContent(new IRI(bsUrl), contentType);
}
/**
* Make the contents of an external resource mentioned in an <code>mdRef</code> element
* available as an <code>InputStream</code>. See the <code>METSManifest.MdRef</code> interface
* for details.
*
* @param mdref the METS mdRef element to locate the input for.
* @return the input stream of its content.
*/
public InputStream getInputStream(Element mdref)
throws MetadataValidationException, IOException, SQLException, AuthorizeException {
Bitstream mdbs = getBitstreamForMdRef(mdref);
if (mdbs == null)
throw new MetadataValidationException(
"Failed dereferencing bitstream for mdRef element=" + mdref.toString());
return mdbs.retrieve();
}
// returns absolute URL to download content of bitstream (which might not belong to any Item)
protected String urlOfBitstream(HttpServletRequest request, Bitstream logo) {
String name = logo.getName();
return resolveURL(request, null)
+ (uiType.equalsIgnoreCase(UITYPE_XMLUI) ? "/bitstream/id/" : "/retrieve/")
+ logo.getID()
+ "/"
+ (name == null ? "" : name);
}
/**
* each entry represents a bitstream....
*
* @param c
* @param i
* @param path
* @param fileName
* @param bundleName
* @throws SQLException
* @throws IOException
* @throws AuthorizeException
*/
private void processContentFileEntry(
Context c, Item i, String path, String fileName, String bundleName, boolean primary)
throws SQLException, IOException, AuthorizeException {
String fullpath = path + File.separatorChar + fileName;
// get an input stream
BufferedInputStream bis = new BufferedInputStream(new FileInputStream(fullpath));
Bitstream bs = null;
String newBundleName = bundleName;
if (bundleName == null) {
// is it license.txt?
if ("license.txt".equals(fileName)) {
newBundleName = "LICENSE";
} else {
// call it ORIGINAL
newBundleName = "ORIGINAL";
}
}
if (!isTest) {
// find the bundle
Bundle[] bundles = i.getBundles(newBundleName);
Bundle targetBundle = null;
if (bundles.length < 1) {
// not found, create a new one
targetBundle = i.createBundle(newBundleName);
} else {
// put bitstreams into first bundle
targetBundle = bundles[0];
}
// now add the bitstream
bs = targetBundle.createBitstream(bis);
bs.setName(fileName);
// Identify the format
// FIXME - guessing format guesses license.txt incorrectly as a text
// file format!
BitstreamFormat bf = FormatIdentifier.guessFormat(c, bs);
bs.setFormat(bf);
// Is this a the primary bitstream?
if (primary) {
targetBundle.setPrimaryBitstreamID(bs.getID());
targetBundle.update();
}
bs.update();
}
bis.close();
}
public static Document getRssDocument(Bitstream rssUrlBitstream) {
try {
return getRssDocument(
rssUrlBitstream.getbContext(),
rssUrlBitstream.retrieve(),
rssUrlBitstream.getBundles()[0]);
} catch (Exception e) {
ExceptionLogger.logException(log, e);
}
return null;
}
/**
* Get the license for this Item as String. License is the first bitstream named "license.txt" in
* a LICENSE bundle, apparently?
*
* <p>FIXME: is this correct? there's no counterexample..
*
* @return license string, or null if none found.
* @throws SQLException the SQL exception
* @throws AuthorizeException the authorize exception
* @throws IOException Signals that an I/O exception has occurred.
*/
private String getLicenseAsString() throws SQLException, AuthorizeException, IOException {
Bundle lb[] = this.item.getBundles(Constants.LICENSE_BUNDLE_NAME);
for (Bundle element : lb) {
Bitstream lbs = element.getBitstreamByName("license.txt");
if (lbs != null) {
ByteArrayOutputStream baos = new ByteArrayOutputStream((int) lbs.getSize());
Utils.copy(lbs.retrieve(), baos);
return baos.toString();
}
}
return null;
}
@Override
public int perform(DSpaceObject dso) throws IOException {
status = Curator.CURATE_SKIP;
logDebugMessage("The target dso is " + dso.getName());
if (dso instanceof Item) {
status = Curator.CURATE_SUCCESS;
Item item = (Item) dso;
try {
openSession();
} catch (IOException ioE) {
// no point going further - set result and error out
closeSession();
setResult(CONNECT_FAIL_MESSAGE);
return Curator.CURATE_ERROR;
}
try {
Bundle bundle = item.getBundles("ORIGINAL")[0];
results = new ArrayList<String>();
for (Bitstream bitstream : bundle.getBitstreams()) {
InputStream inputstream = bitstream.retrieve();
logDebugMessage("Scanning " + bitstream.getName() + " . . . ");
int bstatus = scan(bitstream, inputstream, getItemHandle(item));
inputstream.close();
if (bstatus == Curator.CURATE_ERROR) {
// no point going further - set result and error out
setResult(SCAN_FAIL_MESSAGE);
status = bstatus;
break;
}
if (failfast && bstatus == Curator.CURATE_FAIL) {
status = bstatus;
break;
} else if (bstatus == Curator.CURATE_FAIL && status == Curator.CURATE_SUCCESS) {
status = bstatus;
}
}
} catch (AuthorizeException authE) {
throw new IOException(authE.getMessage(), authE);
} catch (SQLException sqlE) {
throw new IOException(sqlE.getMessage(), sqlE);
} finally {
closeSession();
}
if (status != Curator.CURATE_ERROR) {
formatResults(item);
}
}
return status;
}
/**
* Delete bitstream from item
*
* @param context
* @param ItemArchive
* @param isTest
* @param suppressUndo
* @throws IllegalArgumentException
* @throws ParseException
* @throws IOException
* @throws AuthorizeException
* @throws SQLException
*/
public void execute(Context context, ItemArchive itarch, boolean isTest, boolean suppressUndo)
throws IllegalArgumentException, IOException, SQLException, AuthorizeException,
ParseException {
File f = new File(itarch.getDirectory(), ItemUpdate.DELETE_CONTENTS_FILE);
if (!f.exists()) {
ItemUpdate.pr(
"Warning: Delete_contents file for item " + itarch.getDirectoryName() + " not found.");
} else {
List<Integer> list = MetadataUtilities.readDeleteContentsFile(f);
if (list.isEmpty()) {
ItemUpdate.pr("Warning: empty delete_contents file for item " + itarch.getDirectoryName());
} else {
for (int id : list) {
try {
Bitstream bs = Bitstream.find(context, id);
if (bs == null) {
ItemUpdate.pr("Bitstream not found by id: " + id);
} else {
Bundle[] bundles = bs.getBundles();
for (Bundle b : bundles) {
if (isTest) {
ItemUpdate.pr("Delete bitstream with id = " + id);
} else {
b.removeBitstream(bs);
ItemUpdate.pr("Deleted bitstream with id = " + id);
}
}
if (alterProvenance) {
DtoMetadata dtom = DtoMetadata.create("dc.description.provenance", "en", "");
String append =
"Bitstream " + bs.getName() + " deleted on " + DCDate.getCurrent() + "; ";
Item item = bundles[0].getItems()[0];
ItemUpdate.pr("Append provenance with: " + append);
if (!isTest) {
MetadataUtilities.appendMetadata(item, dtom, false, append);
}
}
}
} catch (SQLException e) {
ItemUpdate.pr("Error finding bitstream from id: " + id + " : " + e.toString());
}
}
}
}
}
@GET
@Path("/{bitstream_id}")
@Produces({MediaType.APPLICATION_JSON, MediaType.APPLICATION_XML})
public Bitstream getBitstream(
@PathParam("bitstream_id") Integer bitstream_id, @QueryParam("expand") String expand) {
org.dspace.core.Context context = null;
try {
context = new org.dspace.core.Context();
org.dspace.content.Bitstream bitstream =
org.dspace.content.Bitstream.find(context, bitstream_id);
if (AuthorizeManager.authorizeActionBoolean(
context, bitstream, org.dspace.core.Constants.READ)) {
return new org.dspace.rest.common.Bitstream(bitstream, expand);
} else {
throw new WebApplicationException(Response.Status.UNAUTHORIZED);
}
} catch (SQLException e) {
log.error(e.getMessage());
throw new WebApplicationException(Response.Status.INTERNAL_SERVER_ERROR);
} finally {
if (context != null) {
try {
context.complete();
} catch (SQLException e) {
log.error(e.getMessage() + " occurred while trying to close");
}
}
}
}
/**
* Fast stream copy routine
*
* @param b
* @return
* @throws IOException
* @throws SQLException
* @throws AuthorizeException
*/
public static byte[] copy(Bitstream b) throws IOException, SQLException, AuthorizeException {
InputStream in = null;
ByteArrayOutputStream out = null;
try {
in = b.retrieve();
out = new ByteArrayOutputStream();
while (true) {
synchronized (buffer) {
int amountRead = in.read(buffer);
if (amountRead == -1) {
break;
}
out.write(buffer, 0, amountRead);
}
}
} finally {
if (in != null) {
in.close();
}
if (out != null) {
out.close();
}
}
return out.toByteArray();
}
private void populateTableRowFromCollection(Collection collection, TableRow row) {
int id = collection.getID();
Bitstream logo = collection.getLogo();
Item templateItem = collection.getTemplateItem();
Group admins = collection.getAdministrators();
Group[] workflowGroups = collection.getWorkflowGroups();
if (logo == null) {
row.setColumnNull("logo_bitstream_id");
} else {
row.setColumn("logo_bitstream_id", logo.getID());
}
if (templateItem == null) {
row.setColumnNull("template_item_id");
} else {
row.setColumn("template_item_id", templateItem.getID());
}
if (admins == null) {
row.setColumnNull("admin");
} else {
row.setColumn("admin", admins.getID());
}
for (int i = 1; i <= workflowGroups.length; i++) {
Group g = workflowGroups[i - 1];
if (g == null) {
row.setColumnNull("workflow_step_" + i);
} else {
row.setColumn("workflow_step_" + i, g.getID());
}
}
// Now loop over all allowed metadata fields and set the value into the
// TableRow.
for (CollectionMetadataField field : CollectionMetadataField.values()) {
String value = collection.getMetadata(field.toString());
if (value == null) {
row.setColumnNull(field.toString());
} else {
row.setColumn(field.toString(), value);
}
}
row.setColumn("uuid", collection.getIdentifier().getUUID().toString());
}
/**
* Register the bitstream file into DSpace
*
* @param c
* @param i
* @param assetstore
* @param bitstreamPath the full filepath expressed in the contents file
* @param bundleName
* @throws SQLException
* @throws IOException
* @throws AuthorizeException
*/
private void registerBitstream(
Context c, Item i, int assetstore, String bitstreamPath, String bundleName)
throws SQLException, IOException, AuthorizeException {
// TODO validate assetstore number
// TODO make sure the bitstream is there
Bitstream bs = null;
String newBundleName = bundleName;
if (bundleName == null) {
// is it license.txt?
if (bitstreamPath.endsWith("license.txt")) {
newBundleName = "LICENSE";
} else {
// call it ORIGINAL
newBundleName = "ORIGINAL";
}
}
if (!isTest) {
// find the bundle
Bundle[] bundles = i.getBundles(newBundleName);
Bundle targetBundle = null;
if (bundles.length < 1) {
// not found, create a new one
targetBundle = i.createBundle(newBundleName);
} else {
// put bitstreams into first bundle
targetBundle = bundles[0];
}
// now add the bitstream
bs = targetBundle.registerBitstream(assetstore, bitstreamPath);
// set the name to just the filename
int iLastSlash = bitstreamPath.lastIndexOf('/');
bs.setName(bitstreamPath.substring(iLastSlash + 1));
// Identify the format
// FIXME - guessing format guesses license.txt incorrectly as a text file format!
BitstreamFormat bf = FormatIdentifier.guessFormat(c, bs);
bs.setFormat(bf);
bs.update();
}
}
@GET
@Path("/{bitstream_id}/retrieve")
public javax.ws.rs.core.Response getFile(
@PathParam("bitstream_id") final Integer bitstream_id,
@QueryParam("userIP") String user_ip,
@QueryParam("userAgent") String user_agent,
@QueryParam("xforwarderfor") String xforwarderfor,
@Context HttpHeaders headers,
@Context HttpServletRequest request) {
org.dspace.core.Context context = null;
try {
context = new org.dspace.core.Context();
org.dspace.content.Bitstream bitstream =
org.dspace.content.Bitstream.find(context, bitstream_id);
if (AuthorizeManager.authorizeActionBoolean(
context, bitstream, org.dspace.core.Constants.READ)) {
if (writeStatistics) {
writeStats(context, bitstream_id, user_ip, user_agent, xforwarderfor, headers, request);
}
return Response.ok(bitstream.retrieve()).type(bitstream.getFormat().getMIMEType()).build();
} else {
throw new WebApplicationException(Response.Status.UNAUTHORIZED);
}
} catch (IOException e) {
log.error(e.getMessage());
throw new WebApplicationException(Response.Status.INTERNAL_SERVER_ERROR);
} catch (SQLException e) {
log.error(e.getMessage());
throw new WebApplicationException(Response.Status.INTERNAL_SERVER_ERROR);
} catch (AuthorizeException e) {
log.error(e.getMessage());
throw new WebApplicationException(Response.Status.UNAUTHORIZED);
} finally {
if (context != null) {
try {
context.complete();
} catch (SQLException e) {
log.error(e.getMessage() + " occurred while trying to close");
}
}
}
}
/**
* Returns canonical link to a bitstream in the item.
*
* @param item The DSpace Item that the bitstream is part of
* @param bitstream The bitstream to link to
* @returns a String link to the bitstream
*/
private String makeBitstreamLink(Item item, Bitstream bitstream) {
String name = bitstream.getName();
StringBuilder result = new StringBuilder(contextPath);
result.append("/bitstream/item/").append(String.valueOf(item.getID()));
// append name although it isn't strictly necessary
try {
if (name != null) {
result.append("/").append(Util.encodeBitstreamName(name, "UTF-8"));
}
} catch (UnsupportedEncodingException uee) {
// just ignore it, we don't have to have a pretty
// name on the end of the url because the sequence id will
// locate it. However it means that links in this file might
// not work....
}
result.append("?sequence=").append(String.valueOf(bitstream.getSequenceID()));
return result.toString();
}
// utility to grovel bitstream formats..
private static void setFormatToMIMEType(Context context, Bitstream bs, String mimeType)
throws SQLException {
BitstreamFormat bf[] = BitstreamFormat.findNonInternal(context);
for (int i = 0; i < bf.length; ++i) {
if (bf[i].getMIMEType().equalsIgnoreCase(mimeType)) {
bs.setFormat(bf[i]);
break;
}
}
}
/* (non-Javadoc)
* @see org.dspace.app.dav.DAVResource#proppatchInternal(int, org.jdom.Element)
*/
@Override
protected int proppatchInternal(int action, Element prop)
throws SQLException, AuthorizeException, IOException, DAVStatusException {
String newValue = (action == DAV.PROPPATCH_REMOVE) ? null : prop.getText();
// these are "metadata" values..
if (elementsEqualIsh(prop, short_descriptionProperty)
|| elementsEqualIsh(prop, introductory_textProperty)
|| elementsEqualIsh(prop, side_bar_textProperty)
|| elementsEqualIsh(prop, copyright_textProperty)
|| elementsEqualIsh(prop, provenance_descriptionProperty)) {
this.collection.setMetadata(prop.getName(), newValue);
} else if (elementsEqualIsh(prop, displaynameProperty)) {
this.collection.setMetadata("name", newValue);
} else if (elementsEqualIsh(prop, default_licenseProperty)) {
this.collection.setLicense(newValue);
} else if (elementsEqualIsh(prop, logoProperty)) {
if (action == DAV.PROPPATCH_REMOVE) {
this.collection.setLogo(null);
} else {
Element bs = prop.getChild("bitstream", DAV.NS_DSPACE);
if (bs != null) {
InputStream bis = DAVBitstream.getXmlBitstreamContent(this.context, bs);
BitstreamFormat bsf = DAVBitstream.getXmlBitstreamFormat(this.context, bs);
if (bis == null || bsf == null) {
throw new DAVStatusException(DAV.SC_CONFLICT, "Unacceptable value for logo property.");
}
Bitstream nbs = this.collection.setLogo(bis);
nbs.setFormat(bsf);
nbs.update();
} else {
throw new DAVStatusException(
DAV.SC_CONFLICT, "No <bitstream> element value found for logo property.");
}
}
} else {
throw new DAVStatusException(
DAV.SC_CONFLICT, "The " + prop.getName() + " property cannot be changed.");
}
this.collection.update();
return HttpServletResponse.SC_OK;
}
/**
* VERY crude dissemination: just look for the first bitstream with the PDF package type, and toss
* it out. Works on packages importer with this packager, and maybe some others.
*/
public void disseminate(
Context context, DSpaceObject dso, PackageParameters params, OutputStream out)
throws PackageValidationException, CrosswalkException, AuthorizeException, SQLException,
IOException {
if (dso.getType() != Constants.ITEM)
throw new PackageValidationException(
"This disseminator can only handle objects of type ITEM.");
Item item = (Item) dso;
try {
BitstreamFormat pdff = BitstreamFormat.findByShortDescription(context, BITSTREAM_FORMAT_NAME);
if (pdff == null)
throw new PackageValidationException(
"Cannot find BitstreamFormat \"" + BITSTREAM_FORMAT_NAME + "\"");
Bitstream pkgBs =
PackageUtils.getBitstreamByFormat(item, pdff, Constants.DEFAULT_BUNDLE_NAME);
if (pkgBs == null)
throw new PackageValidationException(
"Cannot find Bitstream with format \"" + BITSTREAM_FORMAT_NAME + "\"");
Utils.copy(pkgBs.retrieve(), out);
} finally {
}
}
/**
* Each submission step must define its own information to be reviewed during the final
* Review/Verify Step in the submission process.
*
* <p>The information to review should be tacked onto the passed in List object.
*
* <p>NOTE: To remain consistent across all Steps, you should first add a sub-List object (with
* this step's name as the heading), by using a call to reviewList.addList(). This sublist is the
* list you return from this method!
*
* @param reviewList The List to which all reviewable information should be added
* @return The new sub-List object created by this step, which contains all the reviewable
* information. If this step has nothing to review, then return null!
*/
public List addReviewSection(List reviewList)
throws SAXException, WingException, UIException, SQLException, IOException,
AuthorizeException {
// Create a new list section for this step (and set its heading)
List uploadSection = reviewList.addList("submit-review-" + this.stepAndPage, List.TYPE_FORM);
uploadSection.setHead(T_head);
// Review all uploaded files
Item item = submission.getItem();
Bundle[] bundles = item.getBundles("ORIGINAL");
Bitstream[] bitstreams = new Bitstream[0];
if (bundles.length > 0) {
bitstreams = bundles[0].getBitstreams();
}
for (Bitstream bitstream : bitstreams) {
BitstreamFormat bitstreamFormat = bitstream.getFormat();
String name = bitstream.getName();
String url = makeBitstreamLink(item, bitstream);
String format = bitstreamFormat.getShortDescription();
Message support = ReviewStep.T_unknown;
if (bitstreamFormat.getSupportLevel() == BitstreamFormat.KNOWN) {
support = T_known;
} else if (bitstreamFormat.getSupportLevel() == BitstreamFormat.SUPPORTED) {
support = T_supported;
}
org.dspace.app.xmlui.wing.element.Item file = uploadSection.addItem();
file.addXref(url, name);
file.addContent(" - " + format + " ");
file.addContent(support);
}
// return this new "upload" section
return uploadSection;
}
/**
* Tests bitstream for membership in specified bundles (ORIGINAL, TEXT, THUMBNAIL)
*
* @param bitstream
* @throws BitstreamFilterException
* @returns true if bitstream is in specified bundles
*/
public boolean accept(Bitstream bitstream) throws BitstreamFilterException {
try {
Bundle[] bundles = bitstream.getBundles();
for (Bundle b : bundles) {
for (String bn : bundlesToEmpty) {
if (b.getName().equals(bn)) {
return true;
}
}
}
} catch (SQLException e) {
throw new BitstreamFilterException(e);
}
return false;
}
/*
If we created a new Bitstream but now realised there is a problem then remove it.
*/
private void backoutBitstream(SubmissionInfo subInfo, Bitstream b, Item item)
throws SQLException, AuthorizeException, IOException {
// remove bitstream from bundle..
// delete bundle if it's now empty
Bundle[] bnd = b.getBundles();
bnd[0].removeBitstream(b);
Bitstream[] bitstreams = bnd[0].getBitstreams();
// remove bundle if it's now empty
if (bitstreams.length < 1) {
item.removeBundle(bnd[0]);
item.update();
}
subInfo.setBitstream(null);
}
/**
* Perform a deposit, using the supplied SWORD Deposit object.
*
* @param deposit
* @throws SWORDErrorException
* @throws DSpaceSWORDException
*/
public DepositResult doDeposit(Deposit deposit) throws SWORDErrorException, DSpaceSWORDException {
// get the things out of the service that we need
Context context = swordService.getContext();
SWORDConfiguration swordConfig = swordService.getSwordConfig();
SWORDUrlManager urlManager = swordService.getUrlManager();
// FIXME: the spec is unclear what to do in this situation. I'm going
// the throw a 415 (ERROR_CONTENT) until further notice
//
// determine if this is an acceptable file format
if (!swordConfig.isAcceptableContentType(context, deposit.getContentType(), collection)) {
log.error(
"Unacceptable content type detected: "
+ deposit.getContentType()
+ " for collection "
+ collection.getID());
throw new SWORDErrorException(
ErrorCodes.ERROR_CONTENT,
"Unacceptable content type in deposit request: " + deposit.getContentType());
}
// determine if this is an acceptable packaging type for the deposit
// if not, we throw a 415 HTTP error (Unsupported Media Type, ERROR_CONTENT)
if (!swordConfig.isSupportedMediaType(deposit.getPackaging(), this.collection)) {
log.error(
"Unacceptable packaging type detected: "
+ deposit.getPackaging()
+ "for collection"
+ collection.getID());
throw new SWORDErrorException(
ErrorCodes.ERROR_CONTENT,
"Unacceptable packaging type in deposit request: " + deposit.getPackaging());
}
// Obtain the relevant ingester from the factory
SWORDIngester si = SWORDIngesterFactory.getInstance(context, deposit, collection);
swordService.message("Loaded ingester: " + si.getClass().getName());
// do the deposit
DepositResult result = si.ingest(swordService, deposit, collection);
swordService.message("Archive ingest completed successfully");
// if there's an item availalble, and we want to keep the original
// then do that
try {
if (swordConfig.isKeepOriginal()) {
swordService.message(
"DSpace will store an original copy of the deposit, "
+ "as well as ingesting the item into the archive");
// in order to be allowed to add the file back to the item, we need to ignore authorisations
// for a moment
boolean ignoreAuth = context.ignoreAuthorization();
context.setIgnoreAuthorization(true);
String bundleName = ConfigurationManager.getProperty("sword-server", "bundle.name");
if (bundleName == null || "".equals(bundleName)) {
bundleName = "SWORD";
}
Item item = result.getItem();
Bundle[] bundles = item.getBundles(bundleName);
Bundle swordBundle = null;
if (bundles.length > 0) {
swordBundle = bundles[0];
}
if (swordBundle == null) {
swordBundle = item.createBundle(bundleName);
}
String fn = swordService.getFilename(context, deposit, true);
Bitstream bitstream;
FileInputStream fis = null;
try {
fis = new FileInputStream(deposit.getFile());
bitstream = swordBundle.createBitstream(fis);
} finally {
if (fis != null) {
fis.close();
}
}
bitstream.setName(fn);
bitstream.setDescription("SWORD deposit package");
BitstreamFormat bf = BitstreamFormat.findByMIMEType(context, deposit.getContentType());
if (bf != null) {
bitstream.setFormat(bf);
}
bitstream.update();
swordBundle.update();
item.update();
swordService.message(
"Original package stored as " + fn + ", in item bundle " + swordBundle);
// now reset the context ignore authorisation
context.setIgnoreAuthorization(ignoreAuth);
// set the media link for the created item
result.setMediaLink(urlManager.getMediaLink(bitstream));
} else {
// set the vanilla media link, which doesn't resolve to anything
result.setMediaLink(urlManager.getBaseMediaLinkUrl());
}
} catch (SQLException e) {
log.error("caught exception: ", e);
throw new DSpaceSWORDException(e);
} catch (AuthorizeException e) {
log.error("caught exception: ", e);
throw new DSpaceSWORDException(e);
} catch (FileNotFoundException e) {
log.error("caught exception: ", e);
throw new DSpaceSWORDException(e);
} catch (IOException e) {
log.error("caught exception: ", e);
throw new DSpaceSWORDException(e);
}
return result;
}
public void processDSpaceObject(
Context context,
HttpServletRequest request,
HttpServletResponse response,
DSpaceObject dso,
String extraPathInfo)
throws ServletException, IOException, SQLException, AuthorizeException {
// OK, we have a valid URI. What is it?
if (dso.getType() == Constants.BITSTREAM) {
// FIXME: Check for if-modified-since header
Bitstream bitstream = (Bitstream) dso;
log.info(
LogManager.getHeader(context, "view_bitstream", "bitstream_id=" + bitstream.getID()));
// Pipe the bits
// InputStream is = bitstream.retrieve();
InputStream is = BitstreamStorageManager.retrieve(context, bitstream);
// Set the response MIME type
response.setContentType(bitstream.getFormat().getMIMEType());
response.setHeader("Content-Length", String.valueOf(bitstream.getSize()));
response.setHeader("Content-disposition", "attachment; filename=" + bitstream.getName());
Utils.bufferedCopy(is, response.getOutputStream());
is.close();
response.getOutputStream().flush();
} else if (dso.getType() == Constants.ITEM) {
Item item = (Item) dso;
response.setDateHeader("Last-Modified", item.getLastModified().getTime());
// Check for if-modified-since header
long modSince = request.getDateHeader("If-Modified-Since");
if (modSince != -1 && item.getLastModified().getTime() < modSince) {
// Item has not been modified since requested date,
// hence bitstream has not; return 304
response.setStatus(HttpServletResponse.SC_NOT_MODIFIED);
} else {
// Display the item page
displayItem(context, request, response, item);
}
} else if (dso.getType() == Constants.COLLECTION) {
Collection c = (Collection) dso;
// Store collection location in request
request.setAttribute("dspace.collection", c);
/*
* Find the "parent" community the collection, mainly for
* "breadcrumbs" FIXME: At the moment, just grab the first community
* the collection is in. This should probably be more context
* sensitive when we have multiple inclusion.
*/
Community[] parents = (Community[]) c.getCommunities().toArray();
request.setAttribute("dspace.community", parents[0]);
/*
* Find all the "parent" communities for the collection for
* "breadcrumbs"
*/
request.setAttribute("dspace.communities", getParents(parents[0], true));
// home page, or forward to another page?
if ((extraPathInfo == null) || (extraPathInfo.equals("/"))) {
collectionHome(context, request, response, parents[0], c);
} else {
// Forward to another servlet
request.getRequestDispatcher(extraPathInfo).forward(request, response);
}
} else if (dso.getType() == Constants.COMMUNITY) {
Community c = (Community) dso;
// Store collection location in request
request.setAttribute("dspace.community", c);
/*
* Find all the "parent" communities for the community
*/
request.setAttribute("dspace.communities", getParents(c, false));
// home page, or forward to another page?
if ((extraPathInfo == null) || (extraPathInfo.equals("/"))) {
communityHome(context, request, response, c);
} else {
// Forward to another servlet
request.getRequestDispatcher(extraPathInfo).forward(request, response);
}
} else {
// Shouldn't happen. Log and treat as invalid ID
log.info(
LogManager.getHeader(
context,
"URI not an item, collection or community",
"identifier=" + dso.getIdentifier().toString()));
JSPManager.showInvalidIDError(request, response, request.getPathInfo(), -1);
return;
}
}
protected void doDSGet(Context context, HttpServletRequest request, HttpServletResponse response)
throws ServletException, IOException, SQLException, AuthorizeException {
ExternalIdentifierDAO identifierDAO = ExternalIdentifierDAOFactory.getInstance(context);
Item item = null;
Bitstream bitstream = null;
String idString = request.getPathInfo();
String filenameNoPath = null;
String fullpath = null;
String uri = null;
// Parse URL
if (idString != null) {
// Remove leading slash
if (idString.startsWith("/")) {
idString = idString.substring(1);
}
// Get uri and full file path
int slashIndex = idString.indexOf('/');
if (slashIndex != -1) {
slashIndex = idString.indexOf('/', slashIndex + 1);
if (slashIndex != -1) {
uri = idString.substring(0, slashIndex);
fullpath =
URLDecoder.decode(idString.substring(slashIndex + 1), Constants.DEFAULT_ENCODING);
// Get filename with no path
slashIndex = fullpath.indexOf('/');
if (slashIndex != -1) {
String[] pathComponents = fullpath.split("/");
if (pathComponents.length <= maxDepthGuess + 1) {
filenameNoPath = pathComponents[pathComponents.length - 1];
}
}
}
}
}
if (uri != null && fullpath != null) {
// Find the item
try {
/*
* If the original item doesn't have a persistent identifier
* yet (because it's in the workflow) what we actually have is
* a URL of the form: db-id/1234 where 1234 is the database ID
* of the item.
*
* FIXME: This first part could be totally omitted now that we
* have the dsi:x/y format of identification.
*/
if (uri.startsWith("db-id")) {
String dbIDString = uri.substring(uri.indexOf('/') + 1);
int dbID = Integer.parseInt(dbIDString);
item = ItemDAOFactory.getInstance(context).retrieve(dbID);
} else {
ExternalIdentifier identifier = identifierDAO.retrieve(uri);
ObjectIdentifier oi = identifier.getObjectIdentifier();
item = (Item) oi.getObject(context);
}
} catch (NumberFormatException nfe) {
// Invalid ID - this will be dealt with below
}
}
if (item != null) {
// Try to find bitstream with exactly matching name + path
bitstream = getItemBitstreamByName(item, fullpath);
if (bitstream == null && filenameNoPath != null) {
// No match with the full path, but we can try again with
// only the filename
bitstream = getItemBitstreamByName(item, filenameNoPath);
}
}
// Did we get a bitstream?
if (bitstream != null) {
log.info(
LogManager.getHeader(
context, "view_html", "uri=" + uri + ",bitstream_id=" + bitstream.getID()));
// Set the response MIME type
response.setContentType(bitstream.getFormat().getMIMEType());
// Response length
response.setHeader("Content-Length", String.valueOf(bitstream.getSize()));
// Pipe the bits
InputStream is = bitstream.retrieve();
Utils.bufferedCopy(is, response.getOutputStream());
is.close();
response.getOutputStream().flush();
} else {
// No bitstream - we got an invalid ID
log.info(LogManager.getHeader(context, "view_html", "invalid_bitstream_id=" + idString));
JSPManager.showInvalidIDError(request, response, idString, Constants.BITSTREAM);
}
}
public void setup(org.dspace.content.Bitstream bitstream, String expand) throws SQLException {
List<String> expandFields = new ArrayList<String>();
if (expand != null) {
expandFields = Arrays.asList(expand.split(","));
}
// A logo bitstream might not have a bundle...
if (bitstream.getBundles() != null & bitstream.getBundles().length >= 0) {
if (bitstream.getParentObject().getType() == Constants.ITEM) {
bundleName = bitstream.getBundles()[0].getName();
}
}
description = bitstream.getDescription();
format = bitstream.getFormatDescription();
sizeBytes = bitstream.getSize();
retrieveLink = "/bitstreams/" + bitstream.getID() + "/retrieve";
mimeType = bitstream.getFormat().getMIMEType();
sequenceId = bitstream.getSequenceID();
CheckSum checkSum = new CheckSum();
checkSum.setCheckSumAlgorith(bitstream.getChecksumAlgorithm());
checkSum.setValue(bitstream.getChecksum());
this.setCheckSum(checkSum);
if (expandFields.contains("parent") || expandFields.contains("all")) {
parentObject = new DSpaceObject(bitstream.getParentObject());
} else {
this.addExpand("parent");
}
if (!expandFields.contains("all")) {
this.addExpand("all");
}
}
/**
* perform the ingest using the given deposit object onto the specified target dspace object,
* using the sword service implementation
*
* @param service
* @param deposit
* @param target
* @return
* @throws DSpaceSWORDException
* @throws SWORDErrorException
*/
public DepositResult ingest(SWORDService service, Deposit deposit, DSpaceObject target)
throws DSpaceSWORDException, SWORDErrorException {
try {
if (!(target instanceof Item)) {
throw new DSpaceSWORDException(
"SimpleFileIngester can only be loaded for deposit onto DSpace Items");
}
Item item = (Item) target;
// now set the sword service
SWORDService swordService = service;
// get the things out of the service that we need
Context context = swordService.getContext();
SWORDUrlManager urlManager = swordService.getUrlManager();
Bundle[] bundles = item.getBundles("ORIGINAL");
Bundle original;
if (bundles.length > 0) {
original = bundles[0];
} else {
original = item.createBundle("ORIGINAL");
}
Bitstream bs;
FileInputStream fis = null;
try {
fis = new FileInputStream(deposit.getFile());
bs = original.createBitstream(fis);
} finally {
if (fis != null) {
fis.close();
}
}
String fn = swordService.getFilename(context, deposit, false);
bs.setName(fn);
swordService.message("File created in item with filename " + fn);
BitstreamFormat bf = BitstreamFormat.findByMIMEType(context, deposit.getContentType());
if (bf != null) {
bs.setFormat(bf);
}
// to do the updates, we need to ignore authorisation in the context
boolean ignoreAuth = context.ignoreAuthorization();
context.setIgnoreAuthorization(true);
bs.update();
original.update();
item.update();
// reset the ignore authorisation
context.setIgnoreAuthorization(ignoreAuth);
DepositResult result = new DepositResult();
result.setHandle(urlManager.getBitstreamUrl(bs));
result.setTreatment(this.getTreatment());
result.setBitstream(bs);
return result;
} catch (SQLException e) {
throw new DSpaceSWORDException(e);
} catch (AuthorizeException e) {
throw new DSpaceSWORDException(e);
} catch (IOException e) {
throw new DSpaceSWORDException(e);
}
}
/**
* Process Item, correcting CC-License if encountered.
*
* @param item
* @throws SQLException
* @throws AuthorizeException
* @throws IOException
*/
protected static void handleItem(Item item) throws SQLException, AuthorizeException, IOException {
Bundle[] bundles = item.getBundles("CC-LICENSE");
if (bundles == null || bundles.length == 0) return;
Bundle bundle = bundles[0];
Bitstream bitstream = bundle.getBitstreamByName("license_rdf");
String license_rdf = new String(copy(bitstream));
/* quickly fix xml by ripping out offensive parts */
license_rdf = license_rdf.replaceFirst("<license", "");
license_rdf = license_rdf.replaceFirst("</license>", "");
StringWriter result = new StringWriter();
try {
templates
.newTransformer()
.transform(
new StreamSource(new ByteArrayInputStream(license_rdf.getBytes())),
new StreamResult(result));
} catch (TransformerException e) {
throw new RuntimeException(e.getMessage(), e);
}
StringBuffer buffer = result.getBuffer();
Bitstream newBitstream =
bundle.createBitstream(new ByteArrayInputStream(buffer.toString().getBytes()));
newBitstream.setName(bitstream.getName());
newBitstream.setDescription(bitstream.getDescription());
newBitstream.setFormat(bitstream.getFormat());
newBitstream.setSource(bitstream.getSource());
newBitstream.setUserFormatDescription(bitstream.getUserFormatDescription());
newBitstream.update();
bundle.removeBitstream(bitstream);
bundle.update();
}
